SCN2A
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Also known as Nav1.2HBSCIIHBSCI
Summary
SCN2A (sodium voltage-gated channel alpha subunit 2, HGNC:10588) is a protein-coding gene on chromosome 2q24.3, encoding Sodium channel protein type 2 subunit alpha (Q99250). Mediates the voltage-dependent sodium ion permeability of excitable membranes. It is haploinsufficient (ClinGen: sufficient evidence).
Voltage-gated sodium channels are transmembrane glycoprotein complexes composed of a large alpha subunit with four repeat domains, each of which is composed of six membrane-spanning segments, and one or more regulatory beta subunits. Voltage-gated sodium channels function in the generation and propagation of action potentials in neurons and muscle. This gene encodes one member of the sodium channel alpha subunit gene family. Allelic variants of this gene are associated with seizure disorders and autism spectrum disorder. Alternative splicing results in multiple transcript variants.
Source: NCBI Gene 6326 — RefSeq curated summary.
At a glance
- Gene–disease (curated): complex neurodevelopmental disorder (Definitive, ClinGen) — +10 more curated relationships
- GWAS associations: 18
- Clinical variants (ClinVar): 3,011 total — 353 pathogenic, 302 likely-pathogenic
- Phenotypes (HPO): 208
- Druggable target: yes — 99 molecules with ChEMBL bioactivity
- Dosage sensitivity (ClinGen): haploinsufficiency sufficient evidence, triplosensitivity no evidence
- MANE Select transcript:
NM_001040142
Identifiers
Gene identifiers
| Field | Value |
|---|---|
| HGNC ID | HGNC:10588 |
| Approved symbol | SCN2A |
| Name | sodium voltage-gated channel alpha subunit 2 |
| Location | 2q24.3 |
| Locus type | gene with protein product |
| Status | Approved |
| Aliases | Nav1.2, HBSCII, HBSCI |
| Ensembl gene | ENSG00000136531 |
| Ensembl biotype | protein_coding |
| OMIM | 182390 |
| Entrez | 6326 |
Gene structure
Transcript identifiers
Ensembl transcripts: 20 — 8 protein_coding, 8 nonsense_mediated_decay, 3 protein_coding_CDS_not_defined, 1 retained_intron
ENST00000283256, ENST00000375437, ENST00000424833, ENST00000480032, ENST00000486878, ENST00000631182, ENST00000635945, ENST00000636071, ENST00000636135, ENST00000636384, ENST00000636662, ENST00000636769, ENST00000636985, ENST00000637266, ENST00000637367, ENST00000638151, ENST00000640791, ENST00000673831, ENST00000673883, ENST00000674133
RefSeq mRNA: 5 — MANE Select: NM_001040142
NM_001040142, NM_001040143, NM_001371246, NM_001371247, NM_021007
CCDS: CCDS33313, CCDS33314
Canonical transcript exons
ENST00000375437 — 27 exons
| Exon | Start | End |
|---|---|---|
| ENSE00003469366 | 165309352 | 165309443 |
| ENSE00003476134 | 165312025 | 165312088 |
| ENSE00003480100 | 165354192 | 165354671 |
| ENSE00003515214 | 165367217 | 165367371 |
| ENSE00003520813 | 165377597 | 165377650 |
| ENSE00003534381 | 165326852 | 165326984 |
| ENSE00003577130 | 165331330 | 165331568 |
| ENSE00003578392 | 165344555 | 165344911 |
| ENSE00003583124 | 165323156 | 165323500 |
| ENSE00003607689 | 165295773 | 165296090 |
| ENSE00003618158 | 165297017 | 165297135 |
| ENSE00003622830 | 165313902 | 165314108 |
| ENSE00003624540 | 165310323 | 165310595 |
| ENSE00003632501 | 165342296 | 165342469 |
| ENSE00003637082 | 165307848 | 165307937 |
| ENSE00003646557 | 165308666 | 165308794 |
| ENSE00003650170 | 165315471 | 165315758 |
| ENSE00003667200 | 165313620 | 165313761 |
| ENSE00003673050 | 165365143 | 165365263 |
| ENSE00003692338 | 165374685 | 165374966 |
| ENSE00003768497 | 165386746 | 165387016 |
| ENSE00003793096 | 165380592 | 165380729 |
| ENSE00003797234 | 165381093 | 165381197 |
| ENSE00003797951 | 165370126 | 165370299 |
| ENSE00003798346 | 165373225 | 165373347 |
| ENSE00003843655 | 165239414 | 165239640 |
| ENSE00003848820 | 165388629 | 165392304 |
Expression profiles
Bgee: expression breadth ubiquitous, 187 present calls, max score 98.77.
FANTOM5 (CAGE): breadth broad, TPM avg 15.1310 / max 2181.7494, expressed in 368 samples.
FANTOM5 promoters (7 alternative TSS)
| Promoter ID | TPM avg | Samples expressed |
|---|---|---|
| 23415 | 7.1018 | 138 |
| 23416 | 5.8147 | 137 |
| 23418 | 1.8434 | 304 |
| 23417 | 0.2913 | 68 |
| 23419 | 0.0336 | 17 |
| 23426 | 0.0286 | 13 |
| 23414 | 0.0175 | 9 |
Top tissues by expression
289 total, by Bgee expression score (0-100, higher = more expressed):
| Tissue | Anatomy ID | Expression score | Quality |
|---|---|---|---|
| middle temporal gyrus | UBERON:0002771 | 98.77 | gold quality |
| Brodmann (1909) area 23 | UBERON:0013554 | 98.30 | gold quality |
| cerebellar vermis | UBERON:0004720 | 96.78 | gold quality |
| entorhinal cortex | UBERON:0002728 | 96.62 | gold quality |
| cerebellar cortex | UBERON:0002129 | 96.33 | gold quality |
| parietal lobe | UBERON:0001872 | 96.27 | gold quality |
| cerebellar hemisphere | UBERON:0002245 | 96.27 | gold quality |
| postcentral gyrus | UBERON:0002581 | 96.21 | gold quality |
| superior frontal gyrus | UBERON:0002661 | 96.17 | gold quality |
| right hemisphere of cerebellum | UBERON:0014890 | 95.95 | gold quality |
| cerebellum | UBERON:0002037 | 95.77 | gold quality |
| endothelial cell | CL:0000115 | 95.41 | gold quality |
| primary visual cortex | UBERON:0002436 | 94.15 | gold quality |
| occipital lobe | UBERON:0002021 | 94.10 | gold quality |
| pons | UBERON:0000988 | 93.83 | gold quality |
| prefrontal cortex | UBERON:0000451 | 91.75 | gold quality |
| cortical plate | UBERON:0005343 | 91.48 | gold quality |
| dorsolateral prefrontal cortex | UBERON:0009834 | 90.96 | gold quality |
| Brodmann (1909) area 9 | UBERON:0013540 | 90.83 | gold quality |
| superior vestibular nucleus | UBERON:0007227 | 90.66 | gold quality |
| frontal cortex | UBERON:0001870 | 90.52 | gold quality |
| cerebral cortex | UBERON:0000956 | 89.86 | gold quality |
| substantia nigra pars compacta | UBERON:0001965 | 89.69 | gold quality |
| neocortex | UBERON:0001950 | 89.43 | gold quality |
| lateral globus pallidus | UBERON:0002476 | 88.85 | gold quality |
| telencephalon | UBERON:0001893 | 88.02 | gold quality |
| temporal lobe | UBERON:0001871 | 87.96 | gold quality |
| right frontal lobe | UBERON:0002810 | 87.72 | gold quality |
| Brodmann (1909) area 46 | UBERON:0006483 | 87.46 | gold quality |
| Ammon’s horn | UBERON:0001954 | 87.33 | gold quality |
Single-cell (SCXA)
Detected in 6 experiment(s), a significant marker in 6.
| Experiment | Marker? | Max mean expression |
|---|---|---|
| E-GEOD-75140 | yes | 480.60 |
| E-GEOD-93593 | yes | 309.30 |
| E-CURD-119 | yes | 45.64 |
| E-ANND-3 | yes | 7.71 |
| E-GEOD-84465 | yes | 6.46 |
| E-GEOD-83139 | yes | 3.96 |
Regulation
Is transcription factor: no
Upstream regulators (CollecTRI, top): IL10, KDM5C, KLF4, RCOR1, REST, TNF
miRNA regulators (miRDB)
169 targeting SCN2A, top 30 by miRDB confidence (max_score; target_count = how many genes the miRNA targets in total — lower means more specific):
| miRNA | Max score | Avg score | miRNA target_count |
|---|---|---|---|
| HSA-MIR-30A-5P | 100.00 | 76.31 | 3233 |
| HSA-MIR-30B-5P | 100.00 | 76.29 | 3248 |
| HSA-MIR-30C-5P | 100.00 | 76.29 | 3248 |
| HSA-MIR-30D-5P | 100.00 | 76.32 | 3233 |
| HSA-MIR-30E-5P | 100.00 | 76.32 | 3242 |
| HSA-MIR-6867-5P | 100.00 | 82.21 | 3464 |
| HSA-MIR-4533 | 100.00 | 69.48 | 2758 |
| HSA-MIR-3924 | 100.00 | 72.09 | 2394 |
| HSA-LET-7A-3P | 100.00 | 74.03 | 3932 |
| HSA-LET-7B-3P | 100.00 | 74.08 | 3913 |
| HSA-LET-7F-1-3P | 100.00 | 74.02 | 3928 |
| HSA-MIR-5011-5P | 100.00 | 83.46 | 5820 |
| HSA-MIR-98-3P | 100.00 | 74.08 | 3907 |
| HSA-MIR-3163 | 100.00 | 77.23 | 8605 |
| HSA-MIR-340-5P | 100.00 | 72.50 | 4437 |
| HSA-MIR-186-5P | 99.99 | 70.83 | 3707 |
| HSA-MIR-3662 | 99.99 | 73.82 | 5684 |
| HSA-MIR-548C-3P | 99.99 | 74.01 | 7587 |
| HSA-MIR-371B-5P | 99.99 | 75.34 | 4759 |
| HSA-MIR-12136 | 99.98 | 72.81 | 5713 |
| HSA-MIR-520D-5P | 99.98 | 73.34 | 4883 |
| HSA-MIR-524-5P | 99.98 | 73.43 | 4882 |
| HSA-MIR-4775 | 99.98 | 75.00 | 6394 |
| HSA-MIR-103A-3P | 99.98 | 69.14 | 1595 |
| HSA-MIR-107 | 99.98 | 69.14 | 1595 |
| HSA-MIR-4789-5P | 99.98 | 70.76 | 2721 |
| HSA-MIR-4803 | 99.98 | 71.99 | 3117 |
| HSA-MIR-373-5P | 99.98 | 75.36 | 4753 |
| HSA-MIR-616-5P | 99.98 | 75.58 | 4775 |
| HSA-MIR-3148 | 99.97 | 75.06 | 6478 |
Functional genomics
ClinGen dosage: haploinsufficiency 3 (sufficient evidence), triplosensitivity 0 (no evidence). ClinGen Gene Dosage Map
Literature-anchored findings (GeneRIF, showing 40)
- in autism families, the variant R1902C in SCN2A is located in the calmodulin binding site and was found to reduce binding affinity for calcium-bound calmodulin. (PMID:12610651)
- We found a nonsense mutation of SCN2A in a patient with intractable epilepsy and severe mental decline. The phenotype is like severe myoclonic epilepsy in infancy but distinct because of partial epilepsy, delayed onset and no temperature sensitivity (PMID:15028761)
- a role for the hemizygous deletion of not one but two sodium channel genes (SCN1A and SCN2A) in another complicated and more severe epileptic phenotype. (PMID:15249644)
- Calmodulin mediates Ca2+ sensitivity of Nav1.2 and Nav1.5 sodium channels (PMID:15316014)
- Although data suggest that SCN2A1 activity does not directly influence membrane potential, intracellular Ca(2+) release, or proliferation in normal human pulmonary artery smooth muscle cells, its physiological functions remain unresolved. (PMID:16052353)
- Genetic interaction between the combined mild alleles of monogenic epilepsy genes KCNQ2 and SCN2A1 results in severe epilepsy in transgenic mice. (PMID:16464983)
- Data show that the varied effects of beta1 and beta2 on Nav1.5 and Nav1.2 gating are apparently synergistic and highlight the complex manner, through subunit- and sugar-dependent mechanisms, by which Nav activity is modulated. (PMID:16847056)
- The SCN2A gene was tested for a possible role in hippocampal abnormalities in familial mesial temporal lobe epilepsy. We conclusively ruled out the SCN2A gene as a candidate in FMTLE. (PMID:16914293)
- two large families with benign familial neonatal-infantile seizure (BFNIS) and novel SCN2A mutations; the families had 12 & 9 affected individuals, respectively, with phenotypes consistent with BFNIS; two mutations were discovered in SCN2A (E430Q; I1596S) (PMID:17386050)
- analysis of neonatal & adult splice forms of NaV1.2 with a benign familial neonatal-infantile seizures mutation; developmentally regulated NaV1.2 splicing may be one mechanism that counters the normally high excitability of neonatal neurons (PMID:17467289)
- Characterization of 5’ untranslated regions SCN2A, and identification of cis-conserved noncoding sequences (PMID:17544618)
- In south china, the R188W mutation of the SCN2A gene not releate to children with febrile seizures. (PMID:17641256)
- Allele frequencies of both the D2S111 and the D2S124 polymorphisms of the SCN2A gene were not significantly different between cases with a specific idiopathic generalized epilepsy subtype (with generalized tonic-clonic seizures) and healthy controls. (PMID:17715289)
- Nav1.2 immunostaining was not observed along demyelinated axons in chronic lesions but was expressed by scar and reactive astrocytes within the plaque. (PMID:17805013)
- SCN2A gene mutations are associated with inherited benign neonatal-infantile epilepsy. (PMID:18479388)
- The association of antiepileptic drugs responsiveness with genetic polymorphisms was investigated and any association with mRNA expression of the neuronal sodium channels was correlated. (PMID:18784617)
- Clinically significant mutations identified in the C-terminal region of NaV1 sodium channels cluster in the helix I-IV interface and the helix II-III interhelical segment or in helices III and IV of the NaV1.2 (1777-1882) structure. (PMID:19129176)
- Data demonstrate that the two N-terminal alternatively spliced FGF14 variants, FGF14-1a and FGF14-1b, differentially regulate currents produced by Nav1.2 and Nav1.6 channels. (PMID:19465131)
- The direct effect of heat on Nav1.2 channels localized to the site of action potential initiation potentially causes a profound increase in neuronal excitability. This is likely to contribute to febrile seizure genesis. (PMID:19743470)
- This finding suggests that both nonsense mutations and missense SCN2A mutations cause Dravet syndrome. (PMID:19783390)
- de novo mutations SCN2A-E1211K, -I1473M, and -R102X indicate that SCN2A is an etiologic candidate underlying a variety of intractable childhood epilepsies (PMID:19786696)
- Deletions in SCN2A gene is associated with autistic features and developmental delay. (PMID:20346423)
- Transient expression of seizures occur due to a gain-of-function of mutant Na(V)1.2 channel. (PMID:20371507)
- Genetic variants in the voltage-gated ion channel SCN2A dramatically influence the phenotype of mice carrying an SCN1A mutation as well as the seizures caused by the SCN1A mutation. (PMID:21156207)
- We studied the developmental changes of Na(v)1.1 and Na(v)1.2 in the human hippocampus and temporal lobe (PMID:21377452)
- Thermodynamic and structural studies of Calmodulin (CaM)-Na(v)1.2(IQp) interactions show that apo and (Ca(2+))(4)-CaM adopt distinct conformations that both permit tight association with Na(v)1.2(IQp) during gating. (PMID:21439835)
- Environmental enrichment from birth reduces spontaneous seizures and neuronal damage in the Q54 model of temporal lobe epilepsy. (PMID:21762452)
- Functional studies of SCN2A mutations show that they can cause divergent biophysical defects in Na(V)1.2 and impair cell surface expressions[review] (PMID:22029951)
- association of the gene SCN2A, previously identified in epilepsy syndromes, with the risk of autism (PMID:22495306)
- The results of this study shown that both A1685V (GEFS+) and A1685D (SMEI) mutant Nav1.1 channels are characterized by complete loss of function when they are expressed alone (PMID:22525008)
- This finding suggests that SCN2A mutation is a predisposing factor for acute encephalopathy. (PMID:22591750)
- This study demonistrated the detailed functional analysis of Na(v)1.2 mutant, R1312T, which was originally found in a child with Dravet syndrome. (PMID:22677033)
- This study demonistrated that associated with a duplication of the SCN2A and SCN3A gene cluster on 2q24 in patient with early onset epilepsy. (PMID:23016767)
- Identification of a novel SCN2A mutation in a family with infantile seizures with onset between 6 and 8 months provides further confirmation that this gene is involved in families with a delayed age of onset. (PMID:23360469)
- study identified a de novo SCN2A mutation as the etiology for Ohtahara syndrome in monozygotic twins associated with a unique dentate-olivary dysplasia in the deceased twin (PMID:23550958)
- Mutation of SCN2A induces neuronal hyperexcitability, resulting in infantile epilepsy with favorable outcome (PMID:23758435)
- An SCN2A missense mutation is associated with infantile spasms and bitemporal hypometabolism. (PMID:23827426)
- Our data from the Hong Kong and Malaysia cohorts showed no significant allele, genotype and haplotype association of polymorphisms in the SCN1A, SCN2A, and SCN3A genes with drug responsiveness in epilepsy. (PMID:23859570)
- SCN2A mutations are an important genetic cause of Ohtahara syndrome. Given the wide clinical spectrum associated with SCN2A mutations, genetic testing for SCN2A should be considered for children with different epileptic conditions. (PMID:23935176)
- Following SCN2A knockdown, the concentration of Cu-Zn SOD declined and the si-SCN2A vector group showed a repeated discharge. (PMID:24220630)
Cross-species orthologs
2 orthologs
| Organism | Symbol | Gene ID |
|---|---|---|
| mus_musculus | Scn2a | ENSMUSG00000075318 |
| rattus_norvegicus | Scn2a | ENSRNOG00000005018 |
Paralogs (26): CACNA1G (ENSG00000006283), SCN4A (ENSG00000007314), CACNA1S (ENSG00000081248), CACNA1I (ENSG00000100346), CACNA1F (ENSG00000102001), NALCN (ENSG00000102452), SCN7A (ENSG00000136546), CACNA1A (ENSG00000141837), SCN1A (ENSG00000144285), CACNA1B (ENSG00000148408), CACNA1C (ENSG00000151067), CATSPER3 (ENSG00000152705), SCN3A (ENSG00000153253), CACNA1D (ENSG00000157388), TPCN2 (ENSG00000162341), CATSPER2 (ENSG00000166762), SCN11A (ENSG00000168356), SCN9A (ENSG00000169432), CATSPER1 (ENSG00000175294), SCN5A (ENSG00000183873), SCN10A (ENSG00000185313), TPCN1 (ENSG00000186815), CATSPER4 (ENSG00000188782), CACNA1H (ENSG00000196557), SCN8A (ENSG00000196876), CACNA1E (ENSG00000198216)
Protein
Protein identifiers
Sodium channel protein type 2 subunit alpha — Q99250 (reviewed: Q99250)
Alternative names: HBSC II, Sodium channel protein brain II subunit alpha, Sodium channel protein type II subunit alpha, Voltage-gated sodium channel subunit alpha Nav1.2
All UniProt accessions (11): A0A0D9SGG2, A0A1B0GTS6, A0A1B0GTX0, A0A1B0GW40, A0A1B0GW67, A0A1B0GWA6, A0A669KAR0, A0A669KBL5, A0A669KBM3, Q99250, F6U291
UniProt curated annotations — full annotation on UniProt →
Function. Mediates the voltage-dependent sodium ion permeability of excitable membranes. Assuming opened or closed conformations in response to the voltage difference across the membrane, the protein forms a sodium-selective channel through which Na(+) ions may pass in accordance with their electrochemical gradient. Implicated in the regulation of hippocampal replay occurring within sharp wave ripples (SPW-R) important for memory.
Subunit / interactions. Heterooligomer of a large alpha subunit and a smaller beta subunit. Heterooligomer with SCN2B or SCN4B; disulfide-linked. Heterooligomer with SCN1B or SCN3B; non-covalently linked. Interacts with NEDD4L. Interacts with CALM. Interacts with TMEM233. Interacts with the conotoxin GVIIJ. Interacts with the spider beta/delta-theraphotoxin-Pre1a. Interacts with the conotoxin KIIIA. Interacts with the spider protoxin-II.
Subcellular location. Cell membrane.
Post-translational modifications. May be ubiquitinated by NEDD4L; which would promote its endocytosis. Phosphorylation at Ser-1506 by PKC in a highly conserved cytoplasmic loop slows inactivation of the sodium channel and reduces peak sodium currents. Sumoylated at Lys-38. Sumoylation is induced by hypoxia, increases voltage-gated sodium current and mediates the early response to acute hypoxia in neurons. Sumoylated SCN2A is located at the cell membrane.
Disease relevance. Seizures, benign familial infantile, 3 (BFIS3) [MIM:607745] A form of benign familial infantile epilepsy, a neurologic disorder characterized by afebrile seizures occurring in clusters during the first year of life, without neurologic sequelae. BFIS3 inheritance is autosomal dominant. The disease is caused by variants affecting the gene represented in this entry. Developmental and epileptic encephalopathy 11 (DEE11) [MIM:613721] An autosomal dominant seizure disorder characterized by neonatal or infantile onset of refractory seizures with resultant delayed neurologic development and persistent neurologic abnormalities. Patients may progress to West syndrome, which is characterized by tonic spasms with clustering, arrest of psychomotor development, and hypsarrhythmia on EEG. The disease is caused by variants affecting the gene represented in this entry. Defects in SCN2A are associated with genetic epilepsy with febrile seizures plus (GEFS+), a familial autosomal dominant epilepsy syndrome, a clinical subset of febrile seizures, characterized by frequent episodes after 6 years of age and various types of subsequent epilepsy. Defects in SCN2A are associated with autism spectrum disorders (ASD). It seems that mutations resulting in sodium channel gain of function and increased neuron excitability lead to infantile seizures, whereas variants resulting in sodium channel loss of function and decrease neuron excitability are associated with ASD. Episodic ataxia 9 (EA9) [MIM:618924] An autosomal dominant neurologic disorder characterized by episodic ataxia manifesting in the first years of life, early-onset seizures, difficulty walking, dizziness, slurred speech, headache, vomiting, and pain. The duration of ataxic episodes is heterogeneous. Most patients show episodes lasting minutes to maximum several hours, but periods lasting days up to weeks have been reported. Some patients have mildly delayed development with speech delay and/or autistic features or mildly impaired intellectual development. The disease is caused by variants affecting the gene represented in this entry.
Domain organisation. The sequence contains 4 internal repeats, each with 5 hydrophobic segments (S1, S2, S3, S5, S6) and one positively charged segment (S4). Segments S4 are probably the voltage-sensors and are characterized by a series of positively charged amino acids at every third position.
Similarity. Belongs to the sodium channel (TC 1.A.1.10) family. Nav1.2/SCN2A subfamily.
Isoforms (2)
| UniProt ID | Names | Canonical? |
|---|---|---|
| Q99250-1 | 1, Adult, 6A | yes |
| Q99250-2 | 2, Neonatal, 6N |
RefSeq proteins (5): NP_001035232, NP_001035233, NP_001358175, NP_001358176, NP_066287 (=MANE)
Domains & families (InterPro)
| ID | Name | Type |
|---|---|---|
| IPR000048 | IQ_motif_EF-hand-BS | Binding_site |
| IPR001696 | Na_channel_asu | Family |
| IPR005821 | Ion_trans_dom | Domain |
| IPR010526 | Na_trans_assoc_dom | Domain |
| IPR024583 | Na_trans_cytopl | Domain |
| IPR027359 | Volt_channel_dom_sf | Homologous_superfamily |
| IPR043203 | VGCC_Ca_Na | Family |
| IPR044564 | Na_chnl_inactivation_gate | Domain |
| IPR058542 | IQ_SCN5A_C | Domain |
Pfam: PF00520, PF06512, PF11933, PF24609
Catalyzed reactions (Rhea), 1 shown:
- Na(+)(in) = Na(+)(out) (RHEA:34963)
UniProt features (351 total): sequence variant 112, helix 67, topological domain 29, transmembrane region 24, modified residue 24, turn 21, strand 19, site 11, glycosylation site 10, disulfide bond 7, region of interest 6, compositionally biased region 5, intramembrane region 4, sequence conflict 4, repeat 4, chain 1, cross-link 1, splice variant 1, domain 1
Structure
Experimental structures (PDB)
5 structures.
| PDB | Method | Resolution (Å) |
|---|---|---|
| 4RLY | X-RAY DIFFRACTION | 2.5 |
| 6J8E | ELECTRON MICROSCOPY | 3 |
| 4JPZ | X-RAY DIFFRACTION | 3.02 |
| 2KAV | SOLUTION NMR | |
| 6BUT | SOLUTION NMR |
Predicted structure (AlphaFold)
| Model | pLDDT | Fraction very-high |
|---|---|---|
| AF-Q99250-F1 | 69.28 | 0.17 |
Functional residue map
Curated UniProt residues grouped by drug-discovery relevance — catalytic, ligand-binding, modification, and mutation-validated positions. Source: UniProtKB sequence features.
Catalytic / active sites (11): 330 (binds mu-conotoxin kiiia); 362 (binds mu-conotoxin kiiia); 909 (binds scn2b; via carbonyl oxygen); 916 (binds mu-conotoxin kiiia; via amide nitrogen); 920 (binds mu-conotoxin kiiia; via carbonyl oxygen); 945 (binds mu-conotoxin kiiia); 949 (binds mu-conotoxin kiiia); 1374 (binds mu-conotoxin kiiia; via amide nitrogen); 1429 (binds mu-conotoxin kiiia); 1443 (binds mu-conotoxin kiiia); 1489 (important for channel closure)
Post-translational modifications (25): 686, 687, 721, 1506, 1930, 1943, 1963, 1966, 1971, 38, 4, 468, 471, 484, 526, 528, 531, 553, 554, 558 …
Disulfide bonds (7): 278–338, 910, 910, 912–918, 950–959, 1366–1386, 1731–1746
Glycosylation sites (10): 212, 285, 291, 297, 303, 308, 340, 1368, 1382, 1393
Function
Pathways and Gene Ontology
Reactome pathways
11 pathways
| ID | Pathway |
|---|---|
| R-HSA-445095 | Interaction between L1 and Ankyrins |
| R-HSA-5576892 | Phase 0 - rapid depolarisation |
| R-HSA-9717207 | Sensory perception of sweet, bitter, and umami (glutamate) taste |
| R-HSA-1266738 | Developmental Biology |
| R-HSA-373760 | L1CAM interactions |
| R-HSA-397014 | Muscle contraction |
| R-HSA-422475 | Axon guidance |
| R-HSA-5576891 | Cardiac conduction |
| R-HSA-9675108 | Nervous system development |
| R-HSA-9709957 | Sensory Perception |
| R-HSA-9717189 | Sensory perception of taste |
MSigDB gene sets: 599 (showing top):
GOBP_MEMORY, GOBP_MEMBRANE_DEPOLARIZATION, GOBP_COGNITION, GOBP_BEHAVIOR, GOBP_CIRCULATORY_SYSTEM_PROCESS, GOBP_SODIUM_ION_TRANSMEMBRANE_TRANSPORT, GOBP_MEMBRANE_DEPOLARIZATION_DURING_ACTION_POTENTIAL, GOBP_MONOATOMIC_CATION_TRANSPORT, GOBP_CELLULAR_RESPONSE_TO_OXYGEN_LEVELS, GOBP_MUSCLE_CONTRACTION, GOBP_APOPTOTIC_SIGNALING_PATHWAY, GOBP_RESPONSE_TO_OXYGEN_LEVELS, GOBP_ENSHEATHMENT_OF_NEURONS, chr2q24, TAKEDA_TARGETS_OF_NUP98_HOXA9_FUSION_10D_UP
GO Biological Process (19): sodium ion transport (GO:0006814), nervous system development (GO:0007399), memory (GO:0007613), intrinsic apoptotic signaling pathway in response to osmotic stress (GO:0008627), neuronal action potential (GO:0019228), sodium ion transmembrane transport (GO:0035725), myelination (GO:0042552), neuron apoptotic process (GO:0051402), cellular response to hypoxia (GO:0071456), cardiac muscle cell action potential involved in contraction (GO:0086002), action potential (GO:0001508), regulation of heart rate (GO:0002027), monoatomic ion transport (GO:0006811), monoatomic ion transmembrane transport (GO:0034220), regulation of membrane potential (GO:0042391), transmembrane transport (GO:0055085), cardiac muscle cell action potential (GO:0086001), regulation of muscle system process (GO:0090257), monoatomic cation transmembrane transport (GO:0098655)
GO Molecular Function (6): voltage-gated sodium channel activity (GO:0005248), calmodulin binding (GO:0005516), monoatomic ion channel activity (GO:0005216), monoatomic cation channel activity (GO:0005261), sodium channel activity (GO:0005272), protein binding (GO:0005515)
GO Cellular Component (6): voltage-gated sodium channel complex (GO:0001518), plasma membrane (GO:0005886), membrane (GO:0016020), axon (GO:0030424), node of Ranvier (GO:0033268), monoatomic ion channel complex (GO:0034702)
Reactome top-level categories
Rollup of top-8 pathways:
| Category | Pathways |
|---|---|
| L1CAM interactions | 1 |
| Cardiac conduction | 1 |
| Sensory perception of taste | 1 |
| Axon guidance | 1 |
| Nervous system development | 1 |
| Muscle contraction | 1 |
| Developmental Biology | 1 |
| Sensory Perception | 1 |
GO top-level categories
Rollup of top GO terms by namespace:
| Category | Terms |
|---|---|
| action potential | 2 |
| regulation of biological quality | 2 |
| transport | 2 |
| monoatomic ion transmembrane transport | 2 |
| cellular anatomical structure | 2 |
| metal ion transport | 1 |
| system development | 1 |
| learning or memory | 1 |
| cellular response to osmotic stress | 1 |
| intrinsic apoptotic signaling pathway | 1 |
| transmission of nerve impulse | 1 |
| sodium ion transport | 1 |
| monoatomic cation transmembrane transport | 1 |
| axon ensheathment | 1 |
| apoptotic process | 1 |
| response to hypoxia | 1 |
| cellular response to stress | 1 |
| cellular response to decreased oxygen levels | 1 |
| cardiac muscle cell action potential | 1 |
| cardiac muscle cell contraction | 1 |
| regulation of membrane potential | 1 |
| regulation of heart contraction | 1 |
| monoatomic ion transport | 1 |
| transmembrane transport | 1 |
| cellular process | 1 |
| muscle system process | 1 |
| regulation of system process | 1 |
| monoatomic cation transport | 1 |
| sodium channel activity | 1 |
| protein binding | 1 |
| monoatomic ion transmembrane transporter activity | 1 |
| channel activity | 1 |
| monoatomic ion channel activity | 1 |
| monoatomic cation transmembrane transporter activity | 1 |
| monoatomic cation channel activity | 1 |
| sodium ion transmembrane transporter activity | 1 |
| binding | 1 |
| sodium channel complex | 1 |
| plasma membrane protein complex | 1 |
| membrane | 1 |
Protein interactions and networks
STRING
2714 interactions, top by confidence (×1000):
| Protein A | Protein B | Partner UniProt | Score |
|---|---|---|---|
| SCN2A | ANK3 | Q12955 | 937 |
| SCN2A | SCN1B | Q07699 | 930 |
| SCN2A | PRRT2 | Q7Z6L0 | 898 |
| SCN2A | KCNQ2 | O43526 | 887 |
| SCN2A | SCN1A | P35498 | 875 |
| SCN2A | NAV1 | Q8NEY1 | 871 |
| SCN2A | SCN4B | Q8IWT1 | 865 |
| SCN2A | PCDH19 | Q8TAB3 | 844 |
| SCN2A | STXBP1 | P61764 | 833 |
| SCN2A | CALM1 | P02593 | 825 |
| SCN2A | HBB | P02023 | 820 |
| SCN2A | CDKL5 | O76039 | 813 |
| SCN2A | SCN3B | Q9NY72 | 808 |
| SCN2A | KCNA1 | Q09470 | 791 |
| SCN2A | PCDH10 | Q9P2E7 | 781 |
IntAct
17 interactions, top by confidence:
| A | B | Type | Score |
|---|---|---|---|
| CALM1 | FGF13 | psi-mi:“MI:0915”(physical association) | 0.700 |
| SCN2A | CALM1 | psi-mi:“MI:0915”(physical association) | 0.690 |
| SCN2A | ELAVL3 | psi-mi:“MI:0915”(physical association) | 0.500 |
| Dlg4 | SCN2A | psi-mi:“MI:0407”(direct interaction) | 0.440 |
| SCN2A | ATP5F1A | psi-mi:“MI:0915”(physical association) | 0.400 |
| SCN2A | ATP5PD | psi-mi:“MI:0915”(physical association) | 0.400 |
| CALM1 | psi-mi:“MI:0915”(physical association) | 0.400 | |
| SCN2A | IGLL5 | psi-mi:“MI:0914”(association) | 0.350 |
| CACNA1C | DISP2 | psi-mi:“MI:0914”(association) | 0.350 |
| HCN1 | POTEF | psi-mi:“MI:0914”(association) | 0.350 |
| SCN2A | IGF2BP3 | psi-mi:“MI:0914”(association) | 0.350 |
| ATG16L1 | psi-mi:“MI:0914”(association) | 0.350 | |
| ARHGEF10L | SCN2A | psi-mi:“MI:0915”(physical association) | 0.000 |
| MPP3 | SCN2A | psi-mi:“MI:0915”(physical association) | 0.000 |
| RNF130 | SCN2A | psi-mi:“MI:0915”(physical association) | 0.000 |
BioGRID (79): SCN2A (Proximity Label-MS), SCN2A (Proximity Label-MS), SCN2A (Affinity Capture-MS), SCN2A (Cross-Linking-MS (XL-MS)), TPT1 (Cross-Linking-MS (XL-MS)), SCN2A (Cross-Linking-MS (XL-MS)), SCN2A (Cross-Linking-MS (XL-MS)), CALM2 (Affinity Capture-MS), ELAVL2 (Affinity Capture-MS), IGF2BP2 (Affinity Capture-MS), RARG (Affinity Capture-MS), DNAJC16 (Affinity Capture-MS), ATP1A3 (Affinity Capture-MS), KARS (Affinity Capture-MS), GNAI1 (Affinity Capture-MS)
ESM2 similar proteins: A2APX8, A2ASI5, B1AWN6, C9D7C2, D0E0C2, O08562, O35505, O46669, O73700, O88420, O88457, P02719, P04774, P04775, P08104, P0DMA5, P15381, P15389, P15390, P22002, P27732, P35498, P35499, P35500, Q01815, Q07652, Q13936, Q14524, Q15858, Q20JQ7, Q28371, Q28644, Q2XVR3, Q2XVR4, Q2XVR5, Q2XVR6, Q2XVR7, Q62205, Q62968, Q6QIY3
Diamond homologs: A2APX8, A2ASI5, B1AWN6, B1AYL1, D0E0C2, F1LQQ7, O00555, O08562, O46669, O73705, O73706, O73707, O88420, O88457, P02719, P04774, P04775, P08104, P0DMA5, P15389, P15390, P27884, P35498, P35499, P35500, P54282, P56699, P97445, Q01118, Q02789, Q05973, Q14524, Q15858, Q15878, Q20JQ7, Q28371, Q28644, Q2XVR3, Q2XVR4, Q2XVR5
SIGNOR signaling
33 interactions.
| A | Effect | B | Mechanism |
|---|---|---|---|
| RCOR1 | “down-regulates quantity by repression” | SCN2A | “transcriptional regulation” |
| REST | “down-regulates quantity by repression” | SCN2A | “transcriptional regulation” |
| SCN2A | “up-regulates quantity” | sodium(1+) | relocalization |
| FGF13 | “down-regulates activity” | SCN2A | binding |
| FGF12 | “down-regulates activity” | SCN2A | binding |
| FGF14 | “down-regulates activity” | SCN2A | binding |
| FGF11 | “down-regulates activity” | SCN2A | binding |
| SCN2A | up-regulates | Action_potential | |
| “CoREST-HDAC complex” | “down-regulates quantity by repression” | SCN2A | “transcriptional regulation” |
| GSK3B | “down-regulates activity” | SCN2A | phosphorylation |
| PKA | “down-regulates activity” | SCN2A | phosphorylation |
| PKC | “down-regulates activity” | SCN2A | phosphorylation |
| CSNK2A3 | “up-regulates activity” | SCN2A | phosphorylation |
| CSNK2B | “up-regulates activity” | SCN2A | phosphorylation |
| CSNK2A1 | “up-regulates activity” | SCN2A | phosphorylation |
| CSNK2A2 | “up-regulates activity” | SCN2A | phosphorylation |
| NEDD4L | “down-regulates quantity by destabilization” | SCN2A | ubiquitination |
| TNF | “up-regulates quantity by expression” | SCN2A | “transcriptional regulation” |
| TNF | “up-regulates activity” | SCN2A | |
| KDM5C | “down-regulates quantity by repression” | SCN2A | “transcriptional regulation” |
| IL10 | “down-regulates quantity by repression” | SCN2A | “transcriptional regulation” |
| phenytoin | “down-regulates activity” | SCN2A | “chemical inhibition” |
Disease & clinical
Clinical variants and AI predictions
ClinVar
3011 variants total. Per-class counts are floors (≥ shown; pagination cap):
| Classification | Count (floor) |
|---|---|
| Pathogenic | 353 |
| Likely pathogenic | 302 |
| Uncertain significance | 1250 |
| Likely benign | 707 |
| Benign | 131 |
Top pathogenic / likely-pathogenic (30)
| Variant ID | HGVS | Classification |
|---|---|---|
| 1000049 | NM_001040142.2(SCN2A):c.4901G>T (p.Gly1634Val) | Pathogenic |
| 1013421 | NM_001040142.2(SCN2A):c.4948C>T (p.Leu1650Phe) | Pathogenic |
| 1066198 | NM_001040142.2(SCN2A):c.4551+1G>A | Pathogenic |
| 1068258 | NM_001040142.2(SCN2A):c.4501A>G (p.Met1501Val) | Pathogenic |
| 1070304 | NM_001040142.2(SCN2A):c.787G>A (p.Ala263Thr) | Pathogenic |
| 1071664 | NM_001040142.2(SCN2A):c.718del (p.Ala240fs) | Pathogenic |
| 1071677 | NM_001040142.2(SCN2A):c.1497del (p.Glu500fs) | Pathogenic |
| 1072191 | NM_001040142.2(SCN2A):c.1267G>T (p.Val423Leu) | Pathogenic |
| 1073234 | NM_001040142.2(SCN2A):c.4533dup (p.Pro1512fs) | Pathogenic |
| 1074161 | NM_001040142.2(SCN2A):c.3782G>A (p.Trp1261Ter) | Pathogenic |
| 1074300 | NM_001040142.2(SCN2A):c.4543C>T (p.Arg1515Ter) | Pathogenic |
| 1074301 | NM_001040142.2(SCN2A):c.4787T>G (p.Ile1596Ser) | Pathogenic |
| 1098322 | NM_001040142.2(SCN2A):c.1940del (p.Ala647fs) | Pathogenic |
| 1173107 | NM_001040142.2(SCN2A):c.330C>A (p.Tyr110Ter) | Pathogenic |
| 1180439 | NM_001040142.2(SCN2A):c.986dup (p.Leu329fs) | Pathogenic |
| 1196824 | NM_001040142.2(SCN2A):c.5405G>A (p.Trp1802Ter) | Pathogenic |
| 1198013 | NM_001040142.2(SCN2A):c.721del (p.Ala240_Leu241insTer) | Pathogenic |
| 1206719 | NM_001040142.2(SCN2A):c.476+1G>A | Pathogenic |
| 1219256 | NM_001040142.2(SCN2A):c.1729del (p.Leu577fs) | Pathogenic |
| 1256055 | NM_001040142.2(SCN2A):c.2588C>A (p.Ser863Tyr) | Pathogenic |
| 12876 | NM_001040142.2(SCN2A):c.3988C>T (p.Leu1330Phe) | Pathogenic |
| 12877 | NM_001040142.2(SCN2A):c.4687C>G (p.Leu1563Val) | Pathogenic |
| 12880 | NM_001040142.2(SCN2A):c.3956G>A (p.Arg1319Gln) | Pathogenic |
| 1298832 | NM_001040142.2(SCN2A):c.2017-2A>G | Pathogenic |
| 1300201 | NM_001040142.2(SCN2A):c.4018G>A (p.Val1340Ile) | Pathogenic |
| 130220 | NM_001040142.2(SCN2A):c.3374del (p.Glu1125fs) | Pathogenic |
| 1318908 | NM_001040142.2(SCN2A):c.718G>T (p.Ala240Ser) | Pathogenic |
| 1323562 | NM_001040142.2(SCN2A):c.4446+1A>G | Pathogenic |
| 1342670 | NM_001040142.2(SCN2A):c.1261T>G (p.Leu421Val) | Pathogenic |
| 1342671 | NM_001040142.2(SCN2A):c.4364T>A (p.Ile1455Asn) | Pathogenic |
SpliceAI
4238 predictions. Top by Δscore:
| Variant | Effect | Δscore |
|---|---|---|
| 2:165296087:GAAA:G | donor_gain | 1.0000 |
| 2:165296088:A:T | donor_gain | 1.0000 |
| 2:165296091:G:GG | donor_gain | 1.0000 |
| 2:165307837:C:CA | acceptor_gain | 1.0000 |
| 2:165307859:T:G | acceptor_gain | 1.0000 |
| 2:165307868:T:G | acceptor_gain | 1.0000 |
| 2:165312087:GG:G | donor_gain | 1.0000 |
| 2:165312088:GG:G | donor_gain | 1.0000 |
| 2:165313619:GCCA:G | acceptor_gain | 1.0000 |
| 2:165313896:TTGCA:T | acceptor_loss | 1.0000 |
| 2:165313897:TGCA:T | acceptor_loss | 1.0000 |
| 2:165313898:GCAGA:G | acceptor_loss | 1.0000 |
| 2:165313899:CA:C | acceptor_loss | 1.0000 |
| 2:165313900:A:AC | acceptor_loss | 1.0000 |
| 2:165313900:A:AG | acceptor_gain | 1.0000 |
| 2:165313901:G:GC | acceptor_gain | 1.0000 |
| 2:165313901:GA:G | acceptor_gain | 1.0000 |
| 2:165313901:GAC:G | acceptor_gain | 1.0000 |
| 2:165313901:GACA:G | acceptor_gain | 1.0000 |
| 2:165313901:GACAC:G | acceptor_gain | 1.0000 |
| 2:165313993:T:TA | acceptor_gain | 1.0000 |
| 2:165314105:TCAG:T | donor_loss | 1.0000 |
| 2:165314106:CAG:C | donor_loss | 1.0000 |
| 2:165314107:AG:A | donor_loss | 1.0000 |
| 2:165314108:GG:G | donor_loss | 1.0000 |
| 2:165314109:GT:G | donor_loss | 1.0000 |
| 2:165314110:T:G | donor_loss | 1.0000 |
| 2:165323153:T:G | acceptor_gain | 1.0000 |
| 2:165323154:A:AG | acceptor_gain | 1.0000 |
| 2:165323155:G:GG | acceptor_gain | 1.0000 |
AlphaMissense
0 scored. Top likely-pathogenic:
dbSNP variants (sampled 300 via entrez): RS1000005741 (2:165377563 G>A), RS1000026430 (2:165268028 A>G), RS1000076153 (2:165325519 G>A), RS1000084150 (2:165313222 C>T), RS1000098009 (2:165345784 C>T), RS1000139270 (2:165377562 T>G), RS1000142152 (2:165357422 C>A), RS1000161115 (2:165305047 A>G), RS1000177567 (2:165241179 T>C), RS1000189145 (2:165291418 C>T), RS1000191130 (2:165266791 G>T), RS1000192036 (2:165357469 A>G), RS1000205736 (2:165254545 G>A), RS1000225061 (2:165266488 T>G), RS1000232833 (2:165248134 A>C)
Disease associations
OMIM: gene MIM:182390 | disease phenotypes: MIM:607745, MIM:613721, MIM:618924, MIM:108600, MIM:601764, MIM:604233, MIM:606369, MIM:160120, MIM:616341, MIM:117100, MIM:308350, MIM:209850, MIM:613863, MIM:201300, MIM:616421, MIM:613722, MIM:128235, MIM:156200, MIM:617080, MIM:618468, MIM:616373
GenCC curated gene-disease
| Disease | Classification | Inheritance |
|---|---|---|
| developmental and epileptic encephalopathy, 11 | Definitive | Autosomal dominant |
| complex neurodevelopmental disorder | Definitive | Autosomal dominant |
| intellectual disability | Definitive | Autosomal dominant |
| seizures, benign familial infantile, 3 | Strong | Autosomal dominant |
| episodic ataxia, type 9 | Strong | Autosomal dominant |
| benign familial neonatal-infantile seizures | Supportive | Autosomal dominant |
| genetic developmental and epileptic encephalopathy | Supportive | Autosomal dominant |
| malignant migrating partial seizures of infancy | Supportive | Autosomal dominant |
| benign familial infantile epilepsy | Supportive | Autosomal dominant |
| Dravet syndrome | Supportive | Autosomal dominant |
| infantile spasms | Supportive | Autosomal dominant |
ClinGen Gene-Disease Validity (1)
Expert-panel classifications — Definitive > Strong > Moderate > Limited > Disputed > Refuted.
| Disease | Classification | Inheritance |
|---|---|---|
| complex neurodevelopmental disorder | Definitive | AD |
Mondo (40): seizures, benign familial infantile, 3 (MONDO:0011904), developmental and epileptic encephalopathy, 11 (MONDO:0013388), (MONDO:0100025), episodic ataxia, type 9 (MONDO:0030064), complex neurodevelopmental disorder (MONDO:0100038), spastic ataxia (MONDO:0017845), neurodevelopmental disorder (MONDO:0700092), benign familial infantile epilepsy (MONDO:0017615), developmental and epileptic encephalopathy (MONDO:0100620), pyridoxine-dependent epilepsy (MONDO:0009945), Dravet syndrome (MONDO:0100135), infantile spasms (MONDO:0018097), generalized epilepsy with febrile seizures plus (MONDO:0018214), Lennox-Gastaut syndrome (MONDO:0016532), autism spectrum disorder (MONDO:0005258)
Orphanet (21): Self-limited neonatal-infantile epilepsy (Orphanet:140927), Early infantile developmental and epileptic encephalopathy (Orphanet:1934), Self-limited infantile epilepsy (Orphanet:306), Non-specific syndromic intellectual disability (Orphanet:528084), Spastic ataxia (Orphanet:316226), Pyridoxine-dependent-developmental and epileptic encephalopathy (Orphanet:3006), Dravet syndrome (Orphanet:33069), West syndrome (Orphanet:3451), Infantile epileptic spasms syndrome (Orphanet:697160), Genetic epilepsy with febrile seizure plus (Orphanet:36387), Lennox-Gastaut syndrome (Orphanet:2382), Hereditary episodic ataxia (Orphanet:211062), Self-limited epilepsy with centrotemporal spikes (Orphanet:1945), Hereditary sensory and autonomic neuropathy type 2 (Orphanet:970), Epilepsy with myoclonic-atonic seizures (Orphanet:1942)
HPO phenotypes
208 total (30 of 208 shown, HPO-id order):
| HPO | Term |
|---|---|
| HP:0000006 | Autosomal dominant inheritance |
| HP:0000054 | Micropenis |
| HP:0000070 | Ureterocele |
| HP:0000110 | Renal dysplasia |
| HP:0000175 | Cleft palate |
| HP:0000252 | Microcephaly |
| HP:0000297 | Facial hypotonia |
| HP:0000340 | Sloping forehead |
| HP:0000348 | High forehead |
| HP:0000463 | Anteverted nares |
| HP:0000466 | Limited neck range of motion |
| HP:0000486 | Strabismus |
| HP:0000505 | Visual impairment |
| HP:0000565 | Esotropia |
| HP:0000577 | Exotropia |
| HP:0000639 | Nystagmus |
| HP:0000657 | Oculomotor apraxia |
| HP:0000707 | Abnormality of the nervous system |
| HP:0000708 | Atypical behavior |
| HP:0000712 | Emotional lability |
| HP:0000717 | Autism |
| HP:0000718 | Aggressive behavior |
| HP:0000729 | Autistic behavior |
| HP:0000736 | Short attention span |
| HP:0000739 | Anxiety |
| HP:0000750 | Delayed speech and language development |
| HP:0000752 | Hyperactivity |
| HP:0000826 | Precocious puberty |
| HP:0000961 | Cyanosis |
| HP:0000975 | Hyperhidrosis |
GWAS associations
18 associations (top):
| Study | Trait | p-value |
|---|---|---|
| GCST002129_12 | Periodontitis (DPAL) | 5.000000e-06 |
| GCST002672_4 | Febrile seizures | 3.000000e-10 |
| GCST002673_3 | Febrile seizures (MMR vaccine-unrelated) | 2.000000e-07 |
| GCST002674_5 | Febrile seizures (MMR vaccine-related) | 4.000000e-06 |
| GCST006630_51 | Diastolic blood pressure | 3.000000e-10 |
| GCST007343_2 | Epilepsy | 2.000000e-13 |
| GCST007352_1 | Focal epilepsy | 7.000000e-09 |
| GCST007353_3 | Generalized epilepsy | 5.000000e-08 |
| GCST007401_10 | Factor VII activity | 8.000000e-07 |
| GCST008103_11 | Bipolar disorder | 2.000000e-09 |
| GCST008154_50 | Trunk fat mass | 3.000000e-06 |
| GCST008647_39 | Urinary sodium excretion | 1.000000e-10 |
| GCST010002_403 | Refractive error | 1.000000e-11 |
| GCST010988_192 | Adult body size | 2.000000e-08 |
| GCST011102_2 | Bipolar disorder | 2.000000e-09 |
| GCST012465_47 | Bipolar disorder | 3.000000e-08 |
| GCST90000047_75 | Age at first sexual intercourse | 1.000000e-08 |
| GCST90000050_17 | Age at first birth | 2.000000e-08 |
EFO canonical traits (6, from GWAS)
| EFO ID | Trait name |
|---|---|
| EFO:0006519 | MMR-related febrile seizures |
| EFO:0006336 | diastolic blood pressure |
| EFO:0004619 | factor VII measurement |
| EFO:0009282 | sodium measurement |
| EFO:0009749 | age at first sexual intercourse measurement |
| EFO:0009101 | age at first birth measurement |
MeSH disease descriptors (12)
| Descriptor | Name | Tree numbers |
|---|---|---|
| D001321 | Autistic Disorder | F03.625.164.113.500 |
| D004828 | Epilepsies, Partial | C10.228.140.490.360 |
| D004827 | Epilepsy | C10.228.140.490 |
| D008607 | Intellectual Disability | C10.597.606.360; C23.888.592.604.646; F01.700.687; F03.625.539 |
| D065768 | Lennox Gastaut Syndrome | C10.228.140.490.493.750; C16.320.495 |
| D009069 | Movement Disorders | C10.228.662 |
| D065886 | Neurodevelopmental Disorders | F03.625 |
| C538001 | Dystonia 12 (supp.) | |
| C567827 | Generalized Epilepsy With Febrile Seizures Plus, 7 (supp.) | |
| C565808 | Generalized Epilepsy with Febrile Seizures Plus (supp.) | |
| C536254 | Pyridoxine-dependent epilepsy (supp.) | |
| C564815 | Spastic Ataxia (supp.) |
Drugs & pharmacology
Drug and pharmacology data
Is drug target: yes
ChEMBL targets (4): CHEMBL2096682 (PROTEIN FAMILY), CHEMBL2331043 (PROTEIN FAMILY), CHEMBL4187 (SINGLE PROTEIN), CHEMBL4523672 (PROTEIN COMPLEX)
Molecules with ChEMBL bioactivity
99 molecules (phase ≥1), by development phase (incl. off-target/promiscuous compounds). Patent mentions across the top 20 by phase: 507,182 (via chembl_molecule»patent_compound — counts attach to the compound, not the gene–compound relationship, so off-target/promiscuous molecules can dominate).
| Molecule | Name | Phase | Patents |
|---|---|---|---|
| CHEMBL1008 | BEPRIDIL | 4 | 11,776 |
| CHEMBL1086 | DIBUCAINE | 4 | 17,231 |
| CHEMBL1093 | ARTICAINE | 4 | 6,583 |
| CHEMBL1098 | BUPIVACAINE | 4 | 37,899 |
| CHEMBL11 | IMIPRAMINE | 4 | 48,893 |
| CHEMBL1108 | DROPERIDOL | 4 | 16,888 |
| CHEMBL1123 | DICYCLOMINE | 4 | 8,691 |
| CHEMBL117785 | TETRABENAZINE | 4 | 9,645 |
| CHEMBL1193 | PHENIRAMINE | 4 | 11,218 |
| CHEMBL1194 | PRILOCAINE | 4 | 15,137 |
| CHEMBL1195 | PROPOXYCAINE | 4 | 5,653 |
| CHEMBL1196 | PROPARACAINE | 4 | 12,973 |
| CHEMBL1197 | HEXYLCAINE | 4 | 4,372 |
| CHEMBL1198 | PRAMOXINE | 4 | 10,295 |
| CHEMBL1200 | BENOXINATE | 4 | 6,712 |
| CHEMBL1294 | QUINIDINE | 4 | 71,943 |
| CHEMBL1480 | FELODIPINE | 4 | 30,761 |
| CHEMBL16 | PHENYTOIN | 4 | 53,375 |
| CHEMBL170 | QUININE | 4 | 108,216 |
| CHEMBL1726 | NISOLDIPINE | 4 | 18,921 |
| CHEMBL193 | NIFEDIPINE | 4 | |
| CHEMBL2 | PRAZOSIN | 4 | |
| CHEMBL23 | DILTIAZEM | 4 | |
| CHEMBL24072 | PRENYLAMINE | 4 | |
| CHEMBL370805 | COCAINE | 4 | |
| CHEMBL422 | TRIFLUOPERAZINE | 4 | |
| CHEMBL43064 | CINNARIZINE | 4 | |
| CHEMBL479 | THIORIDAZINE | 4 | |
| CHEMBL492 | ETIDOCAINE | 4 | |
| CHEMBL505 | CHLORPHENIRAMINE | 4 |
PharmGKB: 1 entry (VIP=true, CPIC=false)
PharmGKB clinical annotations
7 annotations.
| Variant | Type | Level | Drugs | Phenotypes |
|---|---|---|---|---|
| rs17183814 | Efficacy | 4 | antiepileptics;carbamazepine;phenobarbital;phenytoin;valproic acid | Epilepsy |
| rs2304016 | Efficacy | 3 | antiepileptics | Epilepsy |
| rs2304016 | Efficacy | 3 | carbamazepine | Epilepsy |
| rs2304016 | Efficacy | 3 | lamotrigine | Epilepsy |
| rs2304016 | Efficacy | 3 | oxcarbazepine | Epilepsy |
| rs2304016 | Efficacy | 3 | phenytoin | Epilepsy |
| rs2304016 | Efficacy | 3 | topiramate | Epilepsy |
PharmGKB variants
2 variants.
| Variant | Genes | Level | Score | #Clin annots | Drugs |
|---|---|---|---|---|---|
| rs2304016 | SCN2A | 3 | 3.25 | 6 | oxcarbazepine;antiepileptics;carbamazepine;lamotrigine;phenytoin;topiramate |
| rs17183814 | SCN2A | 4 | -2.50 | 1 | antiepileptics;carbamazepine;phenobarbital;phenytoin;valproic acid |
GtoPdb / IUPHAR curated pharmacology
(IUPHAR/BPS Guide to Pharmacology — expert-curated)
Target class: vgic — Voltage-gated sodium channels (NaV)
Most potent curated ligand interactions (25 total), top 25:
| Ligand | Action | Affinity | Parameter |
|---|---|---|---|
| β-scorpion toxin Css IV | Partial agonist | 9.7 | pKd |
| batrachotoxin | Agonist | 9.1 | pKd |
| μ-conotoxin SmIIIA | Pore blocker | 8.9 | pKd |
| saxitoxin | Pore blocker | 8.8 | pIC50 |
| α-scorpion toxin 2 | Slows inactivation | 8.7 | pKd |
| GNE-131 | Inhibition | 8.15 | pIC50 |
| ATX-II | Slows inactivation | 8.1 | pEC50 |
| tetrodotoxin | Pore blocker | 8.0 | pIC50 |
| XPC-5462 | Channel blocker | 7.96 | pIC50 |
| GNE-616 | Inhibition | 7.92 | pKd |
| huwentoxin IV | Voltage-dependent inhibition | 7.8 | pKd |
| protoxin II | Voltage-dependent inhibition | 7.4 | pKi |
| relutrigine | Inhibition | 6.76 | pIC50 |
| funapide | Inhibition | 6.22 | pIC50 |
| etidocaine | Pore blocker | 6.0 | pIC50 |
| aconitine | Partial agonist | 5.9 | pKd |
| Bc-III | Slows inactivation | 5.8 | pEC50 |
| AFT-II | Slows inactivation | 5.7 | pEC50 |
| cannabidiol | Channel blocker | 5.54 | pIC50 |
| veratridine | Partial agonist | 5.2 | pKd |
| lidocaine | Pore blocker | 5.0 | pIC50 |
| phenytoin | Pore blocker | 4.9 | pIC50 |
| lacosamide | Antagonist | 4.52 | pIC50 |
| lamotrigine | Pore blocker | 4.5 | pIC50 |
| δ-hexatoxin-Mg1a | Slows inactivation | 4.5 | pEC50 |
Binding affinities (BindingDB)
577 measured of 587 human assays (587 total across all organisms); most potent 50 below. Values come from heterogeneous assays and are not directly comparable.
| Ligand | Measure | Value | Patent |
|---|---|---|---|
| 5-cyclopropyl-4-[(3R)-1-[(3,5-dichlorophenyl)methyl]piperidin-3-yl]oxy-2-fluoro-N-methylsulfonylbenzamide | IC50 | 0.3 nM | US-9694002: Substituted benzamides and methods of use thereof |
| 5-cyclopropyl-N-cyclopropylsulfonyl-4-[[1-[(3,5-dichlorophenyl)-phenylmethyl]piperidin-4-yl]methoxy]-2-fluorobenzamide | IC50 | 0.8 nM | US-9694002: Substituted benzamides and methods of use thereof |
| 4-[(3R)-1-[[3-chloro-5-(trifluoromethoxy)phenyl]methyl]piperidin-3-yl]oxy-5-cyclopropyl-2-fluoro-N-methylsulfonylbenzamide | IC50 | 1.3 nM | US-9694002: Substituted benzamides and methods of use thereof |
| 5-cyclopropyl-4-[[1-[(3,5-dichlorophenyl)-phenylmethyl]piperidin-4-yl]methoxy]-2-fluoro-N-methylsulfonylbenzamide | IC50 | 1.5 nM | US-9694002: Substituted benzamides and methods of use thereof |
| 5-cyclopropyl-4-[[1-[(2S)-2-(3,5-dichlorophenyl)-1-methoxypropan-2-yl]piperidin-4-yl]methoxy]-2-fluoro-N-methylsulfonylbenzamide | IC50 | 1.6 nM | US-9694002: Substituted benzamides and methods of use thereof |
| 5-cyclopropyl-4-[[1-[(1S)-1-(3,5-dichlorophenyl)-2-methoxy-2-methylpropyl]piperidin-4-yl]methoxy]-N-ethylsulfonyl-2-fluorobenzamide | IC50 | 1.6 nM | US-9694002: Substituted benzamides and methods of use thereof |
| 5-cyclopropyl-4-[[1-[(1S)-1-(3,5-dichloro-2-fluorophenyl)ethyl]piperidin-4-yl]methoxy]-2-fluoro-N-methylsulfonylbenzamide | IC50 | 1.6 nM | US-9694002: Substituted benzamides and methods of use thereof |
| 4-[[1-[1-(2-chloro-4-fluorophenyl)-2,2,2-trifluoroethyl]piperidin-4-yl]methoxy]-5-cyclopropyl-2-fluoro-N-methylsulfonylbenzamide | IC50 | 1.6 nM | US-9694002: Substituted benzamides and methods of use thereof |
| 4-[(3R)-1-[(2-chlorophenyl)methyl]piperidin-3-yl]oxy-5-cyclopropyl-N-cyclopropylsulfonyl-2-fluorobenzamide | IC50 | 1.7 nM | US-9694002: Substituted benzamides and methods of use thereof |
| 5-cyclopropyl-4-[(3R)-1-[(2,4-dichlorophenyl)methyl]piperidin-3-yl]oxy-2-fluoro-N-methylsulfonylbenzamide | IC50 | 1.7 nM | US-9694002: Substituted benzamides and methods of use thereof |
| 5-cyclopropyl-4-[[1-[(1R)-1-(3,5-dichlorophenyl)-2-methoxy-2-methylpropyl]piperidin-4-yl]methoxy]-N-ethylsulfonyl-2-fluorobenzamide | IC50 | 1.7 nM | US-9694002: Substituted benzamides and methods of use thereof |
| 5-cyclopropyl-4-[[1-[2-(3,5-dichlorophenyl)propan-2-yl]piperidin-4-yl]methoxy]-2-fluoro-N-methylsulfonylbenzamide | IC50 | 1.7 nM | US-9694002: Substituted benzamides and methods of use thereof |
| 5-cyclopropyl-4-[[1-[(1S)-1-(3,5-dichlorophenyl)ethyl]-4-methylpiperidin-4-yl]methoxy]-2-fluoro-N-methylsulfonylbenzamide | IC50 | 1.7 nM | US-9694002: Substituted benzamides and methods of use thereof |
| 5-cyclopropyl-4-[[1-[(1S)-1-(3,5-dichlorophenyl)-2-methoxy-2-methylpropyl]piperidin-4-yl]methoxy]-2-fluoro-N-methylsulfonylbenzamide | IC50 | 1.8 nM | US-9694002: Substituted benzamides and methods of use thereof |
| 5-cyclopropyl-2-fluoro-4-[(3R)-1-[[4-fluoro-2-(trifluoromethyl)phenyl]methyl]piperidin-3-yl]oxy-N-methylsulfonylbenzamide | IC50 | 1.9 nM | US-9694002: Substituted benzamides and methods of use thereof |
| 5-cyclopropyl-4-[(3R)-1-[(1S)-1-(3,5-dichlorophenyl)ethyl]piperidin-3-yl]oxy-2-fluoro-N-methylsulfonylbenzamide | IC50 | 1.9 nM | US-9694002: Substituted benzamides and methods of use thereof |
| 4-[[1-[[3-chloro-5-(trifluoromethoxy)phenyl]methyl]piperidin-4-yl]methoxy]-5-cyclopropyl-2-fluoro-N-methylsulfonylbenzamide | IC50 | 1.9 nM | US-9694002: Substituted benzamides and methods of use thereof |
| 5-cyclopropyl-4-[[1-[2-(3,5-dichlorophenyl)propan-2-yl]piperidin-4-yl]methoxy]-N-ethylsulfonyl-2-fluorobenzamide | IC50 | 1.9 nM | US-9694002: Substituted benzamides and methods of use thereof |
| 5-cyclopropyl-4-[[1-[1-(3,5-dichlorophenyl)-2,2,2-trifluoroethyl]piperidin-4-yl]methoxy]-2-fluoro-N-methylsulfonylbenzamide | IC50 | 1.9 nM | US-9694002: Substituted benzamides and methods of use thereof |
| N-(azetidin-1-ylsulfonyl)-4-[(3R,6R)-1-[(2-chloro-4-fluorophenyl)methyl]-6-methylpiperidin-3-yl]oxy-5-cyclopropyl-2-fluorobenzamide | IC50 | 1.9 nM | US-9694002: Substituted benzamides and methods of use thereof |
| 4-[(3R,6R)-1-[(2-chloro-4-fluorophenyl)methyl]-6-methylpiperidin-3-yl]oxy-5-cyclopropyl-N-cyclopropylsulfonyl-2-fluorobenzamide | IC50 | 1.9 nM | US-9694002: Substituted benzamides and methods of use thereof |
| 5-cyclopropyl-4-[[1-[1-(3,5-dichlorophenyl)propyl]piperidin-4-yl]methoxy]-2-fluoro-N-methylsulfonylbenzamide | IC50 | 2 nM | US-9694002: Substituted benzamides and methods of use thereof |
| 4-[[1-[bis(3-chlorophenyl)methyl]piperidin-4-yl]methoxy]-5-cyclopropyl-2-fluoro-N-methylsulfonylbenzamide | IC50 | 2 nM | US-9694002: Substituted benzamides and methods of use thereof |
| 4-[[1-[bis(2-chlorophenyl)methyl]piperidin-4-yl]methoxy]-5-cyclopropyl-2-fluoro-N-methylsulfonylbenzamide | IC50 | 2 nM | US-9694002: Substituted benzamides and methods of use thereof |
| 5-cyclopropyl-N-cyclopropylsulfonyl-4-[(3R)-1-(3,5-dichlorophenyl)piperidin-3-yl]oxy-2-fluorobenzamide | IC50 | 2.1 nM | US-9694002: Substituted benzamides and methods of use thereof |
| 4-[[1-[[2,5-bis(trifluoromethyl)phenyl]methyl]-4-methylpiperidin-4-yl]methoxy]-5-cyclopropyl-2-fluoro-N-methylsulfonylbenzamide | IC50 | 2.1 nM | US-9694002: Substituted benzamides and methods of use thereof |
| 4-[[1-[[3-chloro-5-(trifluoromethyl)phenyl]methyl]piperidin-4-yl]methoxy]-5-cyclopropyl-2-fluoro-N-methylsulfonylbenzamide | IC50 | 2.1 nM | US-9694002: Substituted benzamides and methods of use thereof |
| 4-[[1-[bis(4-chlorophenyl)methyl]piperidin-4-yl]methoxy]-5-cyclopropyl-N-cyclopropylsulfonyl-2-fluorobenzamide | IC50 | 2.1 nM | US-9694002: Substituted benzamides and methods of use thereof |
| 5-cyclopropyl-4-[(3R)-1-[(2,4-dimethylphenyl)methyl]piperidin-3-yl]oxy-2-fluoro-N-methylsulfonylbenzamide | IC50 | 2.1 nM | US-9694002: Substituted benzamides and methods of use thereof |
| 4-[[1-[5-chloro-4-(trifluoromethyl)-2-pyridinyl]-4-methylpiperidin-4-yl]methoxy]-5-cyclopropyl-2-fluoro-N-methylsulfonylbenzamide | IC50 | 2.1 nM | US-9694002: Substituted benzamides and methods of use thereof |
| 5-cyclopropyl-4-[[1-[(1S)-1-(2,4-dichlorophenyl)ethyl]piperidin-4-yl]methoxy]-2-fluoro-N-methylsulfonylbenzamide | IC50 | 2.2 nM | US-9694002: Substituted benzamides and methods of use thereof |
| 5-cyclopropyl-N-cyclopropylsulfonyl-4-[[1-[(3,5-dichlorophenyl)methyl]piperidin-4-yl]methoxy]-2-fluorobenzamide | IC50 | 2.2 nM | US-9694002: Substituted benzamides and methods of use thereof |
| 4-[(3R)-1-[(2-chloro-4-fluorophenyl)methyl]piperidin-3-yl]oxy-5-cyclopropyl-2-fluoro-N-methylsulfonylbenzamide | IC50 | 2.2 nM | US-9694002: Substituted benzamides and methods of use thereof |
| 4-[[(1R,5S)-3-[3-chloro-5-(trifluoromethoxy)phenoxy]-8-azabicyclo[3.2.1]octan-8-yl]methyl]-5-cyclopropyl-N-cyclopropylsulfonyl-2-fluorobenzamide | IC50 | 2.2 nM | US-9694002: Substituted benzamides and methods of use thereof |
| 5-cyclopropyl-4-[[4-(3,5-dichlorophenyl)sulfanylpiperidin-1-yl]methyl]-2-fluorobenzamide | IC50 | 2.2 nM | US-9694002: Substituted benzamides and methods of use thereof |
| 5-cyclopropyl-N-cyclopropylsulfonyl-4-[[1-[(1S)-1-(3,5-dichlorophenyl)-2-methoxyethyl]piperidin-4-yl]methoxy]-2-fluorobenzamide | IC50 | 2.3 nM | US-9694002: Substituted benzamides and methods of use thereof |
| 4-[(3R)-1-[(1S)-1-(2-chloro-4-fluorophenyl)ethyl]piperidin-3-yl]oxy-5-cyclopropyl-2-fluoro-N-methylsulfonylbenzamide | IC50 | 2.3 nM | US-9694002: Substituted benzamides and methods of use thereof |
| 4-[(3R)-1-[(1S)-1-(5-chloro-6-cyclopropyl-2-pyridinyl)ethyl]piperidin-3-yl]oxy-5-cyclopropyl-2-fluoro-N-methylsulfonylbenzamide | IC50 | 2.3 nM | US-9694002: Substituted benzamides and methods of use thereof |
| 4-[(3R)-1-[2-(3-chlorophenyl)propan-2-yl]piperidin-3-yl]oxy-5-cyclopropyl-2-fluorobenzamide | IC50 | 2.3 nM | US-9694002: Substituted benzamides and methods of use thereof |
| 5-cyclopropyl-N-cyclopropylsulfonyl-2-fluoro-4-[(3R)-1-[[4-fluoro-2-(trifluoromethyl)phenyl]methyl]piperidin-3-yl]oxybenzamide | IC50 | 2.4 nM | US-9694002: Substituted benzamides and methods of use thereof |
| 4-[[1-[[5-chloro-2-(trifluoromethyl)phenyl]methyl]-4-methylpiperidin-4-yl]methoxy]-5-cyclopropyl-2-fluoro-N-methylsulfonylbenzamide | IC50 | 2.4 nM | US-9694002: Substituted benzamides and methods of use thereof |
| 5-cyclopropyl-4-[[1-[(1R)-1-(3,5-dichlorophenyl)propyl]piperidin-4-yl]methoxy]-2-fluoro-N-methylsulfonylbenzamide | IC50 | 2.4 nM | US-9694002: Substituted benzamides and methods of use thereof |
| N-(azetidin-1-ylsulfonyl)-4-[(3R,6S)-1-[(2-chloro-4-fluorophenyl)methyl]-6-methylpiperidin-3-yl]oxy-5-cyclopropyl-2-fluorobenzamide | IC50 | 2.4 nM | US-9694002: Substituted benzamides and methods of use thereof |
| 5-cyclopropyl-4-[[1-[(3,5-dichlorophenyl)-phenylmethyl]-3-methylazetidin-3-yl]methoxy]-2-fluoro-N-methylsulfonylbenzamide | IC50 | 2.4 nM | US-9694002: Substituted benzamides and methods of use thereof |
| 5-cyclopropyl-N-cyclopropylsulfonyl-4-[[1-[1-(3,5-dichlorophenyl)ethyl]piperidin-4-yl]methoxy]-2-fluorobenzamide | IC50 | 2.5 nM | US-9694002: Substituted benzamides and methods of use thereof |
| 5-cyclopropyl-4-[[1-[(1R)-1-(3,5-dichlorophenyl)-2-methoxy-2-methylpropyl]piperidin-4-yl]methoxy]-2-fluoro-N-methylsulfonylbenzamide | IC50 | 2.5 nM | US-9694002: Substituted benzamides and methods of use thereof |
| 5-cyclopropyl-4-[[1-[(2,4-dichlorophenyl)methyl]piperidin-4-yl]methoxy]-N-ethylsulfonyl-2-fluorobenzamide | IC50 | 2.5 nM | US-9694002: Substituted benzamides and methods of use thereof |
| 5-cyclopropyl-N-cyclopropylsulfonyl-4-[[1-[(3,5-dichlorophenyl)-phenylmethyl]-3-methylazetidin-3-yl]methoxy]-2-fluorobenzamide | IC50 | 2.5 nM | US-9694002: Substituted benzamides and methods of use thereof |
| 4-[(3R)-1-[(2-chloro-4-methylphenyl)methyl]piperidin-3-yl]oxy-5-cyclopropyl-2-fluoro-N-methylsulfonylbenzamide | IC50 | 2.5 nM | US-9694002: Substituted benzamides and methods of use thereof |
| 5-cyclopropyl-N-cyclopropylsulfonyl-4-[(3R)-1-[(3,5-dichlorophenyl)methyl]piperidin-3-yl]oxy-2-fluorobenzamide | IC50 | 2.6 nM | US-9694002: Substituted benzamides and methods of use thereof |
ChEMBL bioactivities
261 potent at pChembl≥5 of 343 total, top 50 by pChembl (potency: 10 = 0.1 nM, 6 = 1 µM).
| pChembl | Type | Value | Unit | Molecule |
|---|---|---|---|---|
| 9.70 | IC50 | 0.2 | nM | CHEMBL3617063 |
| 9.55 | IC50 | 0.28 | nM | CHEMBL4060338 |
| 9.35 | IC50 | 0.45 | nM | CHEMBL4060338 |
| 9.00 | IC50 | 1 | nM | SAXITOXIN |
| 8.70 | IC50 | 2 | nM | CHEMBL4070670 |
| 8.70 | IC50 | 2 | nM | CHEMBL3662190 |
| 8.68 | IC50 | 2.1 | nM | CHEMBL4070670 |
| 8.60 | IC50 | 2.519 | nM | CHEMBL4217988 |
| 8.52 | IC50 | 3 | nM | CHEMBL4217988 |
| 8.38 | IC50 | 4.2 | nM | CHEMBL3341983 |
| 8.28 | EC50 | 5.3 | nM | CHEMBL4064160 |
| 8.22 | IC50 | 6 | nM | CHEMBL3662077 |
| 8.15 | IC50 | 7 | nM | CHEMBL4290579 |
| 8.12 | IC50 | 7.5 | nM | CHEMBL4082248 |
| 8.00 | IC50 | 10 | nM | CHEMBL4285790 |
| 7.92 | EC50 | 12 | nM | CHEMBL4060338 |
| 7.92 | Kd | 12 | nM | CHEMBL4464990 |
| 7.92 | IC50 | 12 | nM | CHEMBL4854735 |
| 7.89 | IC50 | 13 | nM | CHEMBL4580996 |
| 7.85 | IC50 | 14 | nM | CHEMBL4279238 |
| 7.85 | IC50 | 14 | nM | TETRODOTOXIN |
| 7.82 | IC50 | 15.02 | nM | BREVETOXIN B |
| 7.82 | IC50 | 15 | nM | CHEMBL6143914 |
| 7.72 | IC50 | 18.9 | nM | CHEMBL3657855 |
| 7.70 | IC50 | 20 | nM | CHEMBL3657855 |
| 7.58 | IC50 | 26 | nM | CHEMBL4064160 |
| 7.54 | IC50 | 29 | nM | CHEMBL4068937 |
| 7.51 | IC50 | 31 | nM | CHEMBL4460028 |
| 7.46 | IC50 | 35 | nM | CHEMBL4082248 |
| 7.42 | IC50 | 38 | nM | CHEMBL5094715 |
| 7.39 | IC50 | 41 | nM | CHEMBL4224739 |
| 7.33 | IC50 | 47 | nM | CHEMBL4466858 |
| 7.30 | IC50 | 50 | nM | CHEMBL1269990 |
| 7.27 | IC50 | 54 | nM | PIMOZIDE |
| 7.19 | Kd | 64 | nM | CHEMBL4444707 |
| 7.19 | IC50 | 65 | nM | CHEMBL5598329 |
| 7.18 | IC50 | 66 | nM | CHEMBL4435054 |
| 7.16 | IC50 | 70 | nM | CHEMBL1270301 |
| 7.10 | EC50 | 79 | nM | CHEMBL4082248 |
| 7.10 | IC50 | 79 | nM | CHEMBL3318132 |
| 7.00 | IC50 | 100 | nM | CHEMBL486495 |
| 6.96 | IC50 | 110 | nM | PF-05089771 |
| 6.96 | IC50 | 110 | nM | CHEMBL1269882 |
| 6.92 | EC50 | 120 | nM | CHEMBL4070670 |
| 6.92 | IC50 | 119 | nM | PF-05089771 |
| 6.92 | IC50 | 120 | nM | CHEMBL4588728 |
| 6.92 | IC50 | 120 | nM | CHEMBL5598304 |
| 6.92 | IC50 | 120 | nM | CHEMBL1269991 |
| 6.90 | IC50 | 125 | nM | CHEMBL4471825 |
| 6.85 | Kd | 140 | nM | CHEMBL4471012 |
PubChem BioAssay actives
259 with measured affinity, of 897 total; 50 most potent distinct compounds. Largely complementary to BindingDB; screening values are coarse (µM, 4 dp), so sub-nM hits tie at the floor.
| Compound | Assay | Type | Value | Unit |
|---|---|---|---|---|
| [(3R,5S,6S,11R,12S,16S)-14,17-diamino-19,19-dihydroxy-6-(hydroxymethyl)-10-oxo-3-sulfooxy-8-oxa-1,9,13,15,18-pentazapentacyclo[9.5.2.13,16.05,9.012,16]nonadeca-14,17-dien-13-yl]methyl N-hydroxycarbamate | 1246042: Inhibition of NaV1.2 channel (unknown origin) expressed in Xenopus laevis oocytes by two-electrode oocyte voltage-clamp method | ic50 | <0.0001 | uM |
| 4-[2-(2-amino-3H-benzimidazol-5-yl)-4-chlorophenoxy]-2,5-difluoro-N-(1,2,4-thiadiazol-5-yl)benzenesulfonamide | 1300004: Inhibition of full length human Nav1.2 channel expressed in HEK cells co-expressing human sodium channel subunit beta1 at holding potential -35 mV by automated voltage clamp analysis | ic50 | 0.0002 | uM |
| (5R,7R)-7-decyl-1-oxa-8,10-diazaspiro[4.5]dec-8-en-9-amine | 1432176: Antagonist activity at human Nav1.2 expressed in HEK293T cells assessed as inhibition of VTD-induced tail current by whole cell patch clamp method relative to control | ic50 | 0.0003 | uM |
| [(3aS,4R,10aS)-2,6-diamino-10,10-dihydroxy-3a,4,8,9-tetrahydro-1H-pyrrolo[1,2-c]purin-4-yl]methyl carbamate | 1525389: Inhibition of human Nav1.2 expressed in HEK293 cells by electrophysiology assay | ic50 | 0.0010 | uM |
| (5S,7S)-7-decyl-1-oxa-8,10-diazaspiro[4.5]dec-8-en-9-amine | 1432176: Antagonist activity at human Nav1.2 expressed in HEK293T cells assessed as inhibition of VTD-induced tail current by whole cell patch clamp method relative to control | ic50 | 0.0020 | uM |
| 5-cyclopropyl-N-cyclopropylsulfonyl-2-fluoro-4-[(6-methylspiro[2.5]octan-6-yl)methoxy]benzamide | 1525389: Inhibition of human Nav1.2 expressed in HEK293 cells by electrophysiology assay | ic50 | 0.0020 | uM |
| 3-cyano-4-[2-[2-[(2-piperidin-4-ylethylamino)methyl]-4-pyridinyl]-4-[3-(trifluoromethyl)phenyl]phenoxy]-N-(1,2,4-thiadiazol-5-yl)benzenesulfonamide | 1365875: Inhibition of human Nav1.2 expressed in HEK cells by patch clamp electrophysiology method | ic50 | 0.0025 | uM |
| 4-[2-(3-amino-1,2-benzoxazol-5-yl)-4-chlorophenoxy]-2,5-difluoro-N-(1,2,4-thiadiazol-5-yl)benzenesulfonamide | 1300004: Inhibition of full length human Nav1.2 channel expressed in HEK cells co-expressing human sodium channel subunit beta1 at holding potential -35 mV by automated voltage clamp analysis | ic50 | 0.0042 | uM |
| (5R,6S,7R)-9-amino-7-decyl-1-oxa-8,10-diazaspiro[4.5]dec-8-ene-6-carboxylic acid | 1432177: Inhibition of Nav1.2 (unknown origin) by cell based assay | ec50 | 0.0053 | uM |
| 5-cyclopropyl-N-cyclopropylsulfonyl-4-[(4,4-difluoro-1-methylcyclohexyl)methoxy]-2-fluorobenzamide | 1960144: Inhibition of human Nav1.2 alpha subunit expressed in HEK293 cells co-expressing beta1 subunit at -35 mV holding potential by PatchXpress automated voltage clamp electrophysiology technique | ic50 | 0.0060 | uM |
| N-[7-(1-adamantylmethoxy)-6-cyclopropyl-[1,2,4]triazolo[4,3-a]pyridin-3-yl]cyclopropanesulfonamide | 1410604: Inhibition of inactivated state of recombinant human NaV1.2 expressed in HEK293 cell membranes coexpressing Nav beta1 subunit assessed as decrease in sodium current amplitude at -35 mV holding potential by PX automated voltage clamp method | ic50 | 0.0070 | uM |
| (5S,6R,7S)-9-amino-7-decyl-1-oxa-8,10-diazaspiro[4.5]dec-8-ene-6-carboxylic acid | 1432157: Antagonist activity at human Nav1.2 expressed in HEK293T cells assessed as inhibition of VTD-induced sustained current by whole cell patch clamp method relative to control | ic50 | 0.0075 | uM |
| N-[6-cyclopropyl-7-[(3,5-dichlorophenoxy)methyl]-[1,2,4]triazolo[4,3-a]pyridin-3-yl]methanesulfonamide | 1410604: Inhibition of inactivated state of recombinant human NaV1.2 expressed in HEK293 cell membranes coexpressing Nav beta1 subunit assessed as decrease in sodium current amplitude at -35 mV holding potential by PX automated voltage clamp method | ic50 | 0.0100 | uM |
| (4S)-6-fluoro-4-[(2R,4S)-2-pyridin-2-yl-4-(trifluoromethyl)piperidin-1-yl]-N-pyrimidin-4-yl-3,4-dihydro-2H-chromene-7-sulfonamide | 1587753: Inhibition of full length human Nav1.2 expressed in HEK293 cells at -60 mV holding potential by manual patch clamp electrophysiology method | kd | 0.0120 | uM |
| 4-[(3S,4S)-3-(3,4-difluorophenyl)-1-(2,2,2-trifluoroethyl)piperidin-4-yl]oxy-3,5-difluoro-N-(6-fluoro-2-pyridinyl)benzenesulfonamide | 1754511: Inhibition of human Nav1.2 by V1/2 protocol based analysis | ic50 | 0.0120 | uM |
| 5-chloro-4-[[(1S)-1-(2,5-difluorophenyl)ethyl]amino]-2-fluoro-N-(1,3-thiazol-4-yl)benzenesulfonamide | 1616312: Inhibition of recombinant human full length Nav1.2 co-expressed with human SCN1B in HEK293 cells measured after 20 mins at -45 mV holding potential by whole cell patch clamp assay | ic50 | 0.0130 | uM |
| (1R,5R,6R,7R,9S,11S,12S,13S,14S)-3-amino-14-(hydroxymethyl)-8,10-dioxa-2,4-diazatetracyclo[7.3.1.17,11.01,6]tetradec-3-ene-5,9,12,13,14-pentol | 1525389: Inhibition of human Nav1.2 expressed in HEK293 cells by electrophysiology assay | ic50 | 0.0140 | uM |
| N-[7-(1-adamantylmethoxy)-6-cyclopropyl-[1,2,4]triazolo[4,3-a]pyridin-3-yl]methanesulfonamide | 1410604: Inhibition of inactivated state of recombinant human NaV1.2 expressed in HEK293 cell membranes coexpressing Nav beta1 subunit assessed as decrease in sodium current amplitude at -35 mV holding potential by PX automated voltage clamp method | ic50 | 0.0140 | uM |
| 2-[[(1R,3S,5R,7S,9R,11S,12S,14R,16R,18S,20R,21Z,24S,26R,28S,30R,31R,33S,35R,37S,42R,44S,46R,48S)-12-hydroxy-1,3,11,24,31,41,44-heptamethyl-39-oxo-2,6,10,15,19,25,29,34,38,43,47-undecaoxaundecacyclo[26.22.0.03,26.05,24.07,20.09,18.011,16.030,48.033,46.035,44.037,42]pentaconta-21,40-dien-14-yl]methyl]prop-2-enal | 254847: Inhibitory concentration against synaptosome using [3H]PbTx-3 | ic50 | 0.0150 | uM |
| 4-(1-adamantylmethoxy)-N-(azetidin-1-ylsulfonyl)-5-cyclopropyl-2-fluorobenzamide | 1831648: Inhibition of full length human Nav1.2 expressed in HEK cells by whole cell voltage clamp analysis | ic50 | 0.0189 | uM |
| 2-oxo-3-[(1R)-1-(1,2,3,4-tetrahydroisoquinolin-8-yl)ethyl]-N-(1,2,4-thiadiazol-5-yl)-1,3-benzoxazole-6-sulfonamide | 1466785: Inhibition of Nav1.2 (unknown origin) | ic50 | 0.0290 | uM |
| 4-[[2-[(2,2-dimethylazetidin-1-yl)methyl]-6-fluorophenyl]methylamino]-2,6-difluoro-N-(1,3-thiazol-4-yl)benzenesulfonamide | 1616312: Inhibition of recombinant human full length Nav1.2 co-expressed with human SCN1B in HEK293 cells measured after 20 mins at -45 mV holding potential by whole cell patch clamp assay | ic50 | 0.0310 | uM |
| 5-cyclopropyl-4-[[1-[(1S)-1-(3,5-dichlorophenyl)ethyl]piperidin-4-yl]methoxy]-2-fluoro-N-methylsulfonylbenzamide | 1831648: Inhibition of full length human Nav1.2 expressed in HEK cells by whole cell voltage clamp analysis | ic50 | 0.0380 | uM |
| (2S)-2-[[(2S)-2-[[(2S)-6-amino-2-[[(2S)-6-amino-2-[[(2S)-6-amino-2-[[(1R,4S,7S,13S,16R,21R,24S,27S,30S,33S,36S,39S,42R,45S,48S,51S,54S,57S,60R,65R,68S,71S,74S)-27,57-bis(4-aminobutyl)-21-[[(2S)-2-amino-3-(4-hydroxyphenyl)propanoyl]amino]-24-(3-amino-3-oxopropyl)-54,74-bis(3-carbamimidamidopropyl)-13,51-bis(2-carboxyethyl)-45-(carboxymethyl)-39-[(1R)-1-hydroxyethyl]-48-(hydroxymethyl)-30,36,68-tris(1H-indol-3-ylmethyl)-71-(2-methylpropyl)-7,33-bis(2-methylsulfanylethyl)-3,6,9,12,15,22,25,28,31,34,37,40,43,46,49,52,55,58,67,70,73,76,81-tricosaoxo-4-propan-2-yl-18,19,62,63,78,79-hexathia-2,5,8,11,14,23,26,29,32,35,38,41,44,47,50,53,56,59,66,69,72,75,82-tricosazatricyclo[40.34.4.216,60]dooctacontane-65-carbonyl]amino]hexanoyl]amino]hexanoyl]amino]hexanoyl]amino]-4-methylpentanoyl]amino]-3-(1H-indol-3-yl)propanoic acid | 1388447: Inhibition of Nav1.2 (unknown origin) expressed in xenopus oocytes at -80 mV holding potential by two-electrode voltage-clamp method | ic50 | 0.0410 | uM |
| 2,6-difluoro-4-[[(1S)-1-(2-fluorophenyl)ethyl]amino]-N-(1,3-thiazol-4-yl)benzenesulfonamide | 1616312: Inhibition of recombinant human full length Nav1.2 co-expressed with human SCN1B in HEK293 cells measured after 20 mins at -45 mV holding potential by whole cell patch clamp assay | ic50 | 0.0470 | uM |
| 5-(4-chlorophenyl)-N-[(2-piperidin-1-ylphenyl)methyl]pyridine-3-carboxamide | 527217: Inhibition of human NaV1.2 by electrophysiology | ic50 | 0.0500 | uM |
| Pimozide | 1207165: Inhibition of Na channel (species unknown) | ic50 | 0.0540 | uM |
| 4-[[1-[[2-chloro-5-(trifluoromethyl)phenyl]methyl]piperidin-4-yl]methoxy]-5-cyclopropyl-2-fluoro-N-methylsulfonylbenzamide | 1525419: Binding affinity to human recombinant Nav1.2 by radioligand binding assay | kd | 0.0640 | uM |
| 4-(3-methoxyphenyl)-6-(8-methyl-1,3,4,5-tetrahydro-2-benzazepin-2-yl)pyrimidin-2-amine | 2120760: Inhibition of human Nav1.2 expressed in HEK293 cells at -40 mv holding potential measured after 5 mins by whole cell voltage clamp electrophysiological analysis | ic50 | 0.0650 | uM |
| 2,6-difluoro-4-[[2-fluoro-6-[[methyl(propan-2-yl)amino]methyl]phenyl]methylamino]-N-(1,3-thiazol-4-yl)benzenesulfonamide | 1616312: Inhibition of recombinant human full length Nav1.2 co-expressed with human SCN1B in HEK293 cells measured after 20 mins at -45 mV holding potential by whole cell patch clamp assay | ic50 | 0.0660 | uM |
| 5-(4-chlorophenyl)-N-[(2-piperidin-1-yl-3-pyridinyl)methyl]pyridine-3-carboxamide | 527217: Inhibition of human NaV1.2 by electrophysiology | ic50 | 0.0700 | uM |
| [5-(4-tert-butylphenyl)furan-2-yl]-(4-cyclohexylpiperazin-1-yl)methanone | 404535: Inhibition of human recombinant Nav1.2 channel expressed in HEK293 cells by whole cell voltage clamp technique | ic50 | 0.1000 | uM |
| 4-[2-(5-amino-1H-pyrazol-4-yl)-4-chlorophenoxy]-5-chloro-2-fluoro-N-(1,3-thiazol-4-yl)benzenesulfonamide | 1525389: Inhibition of human Nav1.2 expressed in HEK293 cells by electrophysiology assay | ic50 | 0.1100 | uM |
| 5-(4-chlorophenyl)-N-[(2-methylphenyl)methyl]pyridine-3-carboxamide | 527217: Inhibition of human NaV1.2 by electrophysiology | ic50 | 0.1100 | uM |
| (3S)-3-amino-4-oxo-4-[[(1R,4S,7S,10S,13S,16S,19R,24R,27S,30S,33S,36S,39S,42S,45R,51S,54S,57S,60R,65R,68S,71S,74S,77S,83S)-7,30,36,42,57-pentakis(4-aminobutyl)-77-benzyl-39,68-bis(3-carbamimidamidopropyl)-24-[[(2S)-1-[[(2S)-1-[[(2S)-3-carboxy-1-[[(2S)-1-[[(2S,3R)-1-[[(2S)-1-[[(1S,2R)-1-carboxy-2-hydroxypropyl]amino]-1-oxo-3-phenylpropan-2-yl]amino]-3-hydroxy-1-oxobutan-2-yl]amino]-1-oxo-3-phenylpropan-2-yl]amino]-1-oxopropan-2-yl]amino]-3-(1H-indol-3-yl)-1-oxopropan-2-yl]amino]-1-oxopropan-2-yl]carbamoyl]-4,13-bis(2-carboxyethyl)-10,16,83-tris(carboxymethyl)-27,71-bis[(4-hydroxyphenyl)methyl]-54-(1H-imidazol-5-ylmethyl)-51-(2-methylpropyl)-33,74-bis(2-methylsulfanylethyl)-2,5,8,11,14,17,26,29,32,35,38,41,44,47,50,53,56,59,66,69,72,75,78,81,84,91-hexacosaoxo-21,22,62,63,87,88-hexathia-3,6,9,12,15,18,25,28,31,34,37,40,43,46,49,52,55,58,67,70,73,76,79,82,85,90-hexacosazatricyclo[43.40.4.219,60]hennonacontan-65-yl]amino]butanoic acid | 1525389: Inhibition of human Nav1.2 expressed in HEK293 cells by electrophysiology assay | ic50 | 0.1200 | uM |
| 4-(3-methoxyphenyl)-6-(1,3,4,5-tetrahydro-2-benzazepin-2-yl)pyrimidin-2-amine | 2120760: Inhibition of human Nav1.2 expressed in HEK293 cells at -40 mv holding potential measured after 5 mins by whole cell voltage clamp electrophysiological analysis | ic50 | 0.1200 | uM |
| 5-(4-chlorophenyl)-N-[(2-morpholin-4-ylphenyl)methyl]pyridine-3-carboxamide | 527217: Inhibition of human NaV1.2 by electrophysiology | ic50 | 0.1200 | uM |
| 4-[[2-[[tert-butyl(methyl)amino]methyl]-6-fluorophenyl]methylamino]-2,6-difluoro-N-(1,3-thiazol-4-yl)benzenesulfonamide | 1616312: Inhibition of recombinant human full length Nav1.2 co-expressed with human SCN1B in HEK293 cells measured after 20 mins at -45 mV holding potential by whole cell patch clamp assay | ic50 | 0.1250 | uM |
| N-cyclopropylsulfonyl-1-[(3R)-1-[(1R)-1-(3,5-dichlorophenyl)ethyl]pyrrolidin-3-yl]-6-fluoro-3-methylindazole-5-carboxamide | 1525419: Binding affinity to human recombinant Nav1.2 by radioligand binding assay | kd | 0.1400 | uM |
| 4-[4-chloro-2-(2-methylpyrazol-3-yl)phenoxy]-3-fluoro-N-(1,2,4-thiadiazol-5-yl)benzenesulfonamide | 1457691: Inhibition of human NaV1.2 expressed in HEK cells assessed as half inactivation potential at -120 mV holding potential by automated patch clamp method | ic50 | 0.1490 | uM |
| 2,6-ditert-butyl-4-[[3-(2,6-dimethylphenoxy)propylamino]methyl]phenol | 2120835: Inhibition of Nav1.2 (unknown origin) | ic50 | 0.1800 | uM |
| 2,5-bis[3-(trifluoromethyl)phenyl]-1H-imidazole | 351546: Inhibition of human Nav1.2 channel expressed in HEK cells by patch-clamp electrophysiology method | ic50 | 0.2000 | uM |
| 2,2-diphenyl-N-[4-(1,3-thiazol-2-ylsulfamoyl)phenyl]acetamide | 1246060: Inhibition of human NaV1.2 channel by patch clamp electrophysiology assay | ic50 | 0.2400 | uM |
| Loperamide | 205267: Inhibition of binding of Batrachotoxinin [3H]BTX-B to high affinity sites on voltage dependent sodium channels in a vesicular preparation from guinea pig cerebral cortex | ic50 | 0.2700 | uM |
| 4-[4-chloro-2-(2-methylpyrazol-3-yl)phenoxy]-3-cyano-N-(1,2,4-thiadiazol-5-yl)benzenesulfonamide | 1457691: Inhibition of human NaV1.2 expressed in HEK cells assessed as half inactivation potential at -120 mV holding potential by automated patch clamp method | ic50 | 0.2760 | uM |
| 4-[4-[4-chloro-3-(trifluoromethyl)phenyl]-4-hydroxypiperidin-1-yl]-N,N-dimethyl-2,2-diphenylbutanamide | 205267: Inhibition of binding of Batrachotoxinin [3H]BTX-B to high affinity sites on voltage dependent sodium channels in a vesicular preparation from guinea pig cerebral cortex | ic50 | 0.2800 | uM |
| 3,3-diphenyl-N-(1-phenylpropan-2-yl)propan-1-amine | 205267: Inhibition of binding of Batrachotoxinin [3H]BTX-B to high affinity sites on voltage dependent sodium channels in a vesicular preparation from guinea pig cerebral cortex | ic50 | 0.3000 | uM |
| [5-(4-chlorophenyl)furan-2-yl]-(4-cyclohexylpiperazin-1-yl)methanone | 404535: Inhibition of human recombinant Nav1.2 channel expressed in HEK293 cells by whole cell voltage clamp technique | ic50 | 0.3500 | uM |
| N-(3,5-dimethylphenyl)-6-(4-ethoxyphenyl)pyrazine-2-carboxamide | 536195: Inhibition of human recombinant NaV1.2 by electrophysiology | ic50 | 0.3600 | uM |
| 5-chloro-2-fluoro-4-[2-pyridazin-4-yl-4-(trifluoromethyl)phenoxy]-N-(1,3,4-thiadiazol-2-yl)benzenesulfonamide | 1457691: Inhibition of human NaV1.2 expressed in HEK cells assessed as half inactivation potential at -120 mV holding potential by automated patch clamp method | ic50 | 0.3980 | uM |
CTD chemical–gene interactions
45 total (human), top 30 by PubMed support.
| Chemical | Actions (top 5) | PubMed papers |
|---|---|---|
| mercuric bromide | increases expression, affects cotreatment | 2 |
| 4-(5-benzo(1,3)dioxol-5-yl-4-pyridin-2-yl-1H-imidazol-2-yl)benzamide | increases expression, affects cotreatment | 2 |
| Ascorbic Acid | affects cotreatment, increases expression, affects binding | 2 |
| Benzo(a)pyrene | increases expression, increases methylation | 2 |
| Phenylmercuric Acetate | affects cotreatment, increases expression | 2 |
| Tretinoin | affects binding, increases reaction, affects reaction, affects cotreatment, increases expression | 2 |
| Valproic Acid | increases expression | 2 |
| ascorbate-2-phosphate | affects binding, affects cotreatment, increases expression | 1 |
| tris(2-butoxyethyl) phosphate | affects expression | 1 |
| decamethrin | decreases expression, decreases reaction | 1 |
| sodium arsenite | affects methylation | 1 |
| beta-methylcholine | affects expression | 1 |
| 1,2-bis(2-aminophenoxy)ethane N,N,N’,N’-tetraacetic acid acetoxymethyl ester | decreases expression, decreases reaction | 1 |
| 4-methoxycinnamate methyl ester | increases expression, increases reaction | 1 |
| CGP 52608 | affects binding, increases reaction | 1 |
| PD 150606 | decreases expression, decreases reaction | 1 |
| 1-hydroxy-2-oxo-3,3-bis(2-aminoethyl)-1-triazene | increases expression, affects cotreatment | 1 |
| pinostrobin | increases phosphorylation | 1 |
| Chir 99021 | affects binding, affects cotreatment, increases expression | 1 |
| Grape Seed Proanthocyanidins | affects cotreatment, decreases expression | 1 |
| dorsomorphin | affects cotreatment, increases expression | 1 |
| jinfukang | affects cotreatment, increases expression | 1 |
| XAV939 | increases expression, affects binding, affects cotreatment | 1 |
| LDN 193189 | affects cotreatment, increases expression | 1 |
| (+)-JQ1 compound | decreases expression | 1 |
| Temozolomide | decreases expression | 1 |
| Lamotrigine | decreases activity | 1 |
| Arsenic Trioxide | increases expression | 1 |
| Cyclic AMP | increases expression, affects cotreatment | 1 |
| Atrazine | decreases expression | 1 |
ChEMBL screening assays
203 unique, capped per target: 172 binding, 20 functional, 10 admet, 1 toxicity
Representative assays (with source publication via chembl_document):
| Assay ID | Type | Description | Source paper |
|---|---|---|---|
| CHEMBL679768 | Binding | Inhibition of [3H]BTX binding to guinea pig voltage-dependent sodium channel | Anticonvulsant activity of piperidinol and (dialkylamino)alkanol esters. — J Med Chem |
| CHEMBL749469 | Functional | Antagonism of batrachotoxin-mediated sodium ion uptake into cultured neuroblastoma cells | Batrachotoxin binding site antagonists — Bioorg Med Chem Lett |
| CHEMBL3883160 | ADMET | Inhibition of human Nav1.2 expressed in CHO cells assessed as reduction in peak frequency currents by whole-cell voltage-clamp method | Fused heterocyclic compounds as ion channel modulators |
Cellosaurus cell lines
7 cell lines: 5 induced pluripotent stem cell, 2 spontaneously immortalized cell line
First 10 cell lines (id-ordered, not curated):
| Cellosaurus | Name | Category | Sex |
|---|---|---|---|
| CVCL_C0Y9 | B’SYS CHO Nav1.2 | Spontaneously immortalized cell line | Female |
| CVCL_C8H7 | FINi001-A | Induced pluripotent stem cell | Female |
| CVCL_C8SP | FINi003-A | Induced pluripotent stem cell | Male |
| CVCL_E4Q2 | KOLF2.1J SCN2A 94.3kbdel DEL/DEL | Induced pluripotent stem cell | Male |
| CVCL_LC66 | PrecisION hNav1.2-CHO | Spontaneously immortalized cell line | Female |
| CVCL_VE79 | PFIZi031-A | Induced pluripotent stem cell | Male |
| CVCL_WN05 | CBTCi008-A | Induced pluripotent stem cell | Female |
Clinical trials (associated diseases)
511 trials via MONDO — disease-level, not drug-specific.
| Trial | Phase | Status | Title |
|---|---|---|---|
| NCT01413711 | PHASE4 | WITHDRAWN | An Open-Label, Single and Multiple Oral Dose Pharmacokinetic Study of Vigabatrin in Infants With Infantile Spasms |
| NCT02092883 | PHASE4 | COMPLETED | Evaluation of Neuroinflammation in Children With Infantile Spasms |
| NCT05657860 | PHASE4 | COMPLETED | Guanfacine Extended Release for the Reduction of Aggression and Self-injurious Behavior Associated With Prader-Willi Syndrome |
| NCT05744479 | PHASE4 | RECRUITING | Metformin for Antipsychotic-induced Weight Gain in Adults With Intellectual Disability |
| NCT06107829 | PHASE4 | WITHDRAWN | Valbenazine Treatment of Tardive Dyskinesia in Adults With Intellectual/Developmental Disabilities |
| NCT06997198 | PHASE4 | NOT_YET_RECRUITING | Deutetrabenazine Treatment for Tardive Dyskinesia in Intellectual/Developmental Disabilities |
| NCT04586348 | PHASE4 | UNKNOWN | Prenatal Iodine Supplementation and Early Childhood Neurodevelopment |
| NCT04873115 | PHASE4 | UNKNOWN | Double-blind, Placebo-controlled, Randomized Clinical Trial Comparing the Efficacy and Safety of Sialanar Plus orAl rehabiLitation Against Placebo Plus Oral Rehabilitation for chIldren and Adolescents With seVere Sialorrhoea and Neurodisabilties, |
| NCT05044819 | PHASE4 | ACTIVE_NOT_RECRUITING | Assessment of Potential for Chronic Liver Injury in Participants Treated With Epidiolex (Cannabidiol) Oral Solution |
| NCT06598449 | PHASE4 | RECRUITING | Assessment of Safety of the Use of Fenfluramine in Children With Dravet Syndrome Under 24 Months of Age |
| NCT06924827 | PHASE4 | NOT_YET_RECRUITING | A Study to Investigate the Transition of Children From ‘Artisanal Cannabidiol (CBD) to Epidiolex |
| NCT07112365 | PHASE4 | NOT_YET_RECRUITING | The FINTEPLA as an Anti-SUDEP Therapy in Dravet Syndrome Project |
| NCT06719141 | PHASE3 | RECRUITING | A Study to Investigate LP352 in Children and Adults With Developmental and Epileptic Encephalopathies (DEE) |
| NCT06908226 | PHASE3 | ENROLLING_BY_INVITATION | A Study to Investigate LP352 in Children and Adults With Developmental and Epileptic Encephalopathy (DEE) |
| NCT01575639 | PHASE3 | COMPLETED | Prednisolone in Infantile Spasms- High Dose Versus Usual Dose |
| NCT01828437 | PHASE3 | COMPLETED | Addition of Pyridoxine to Prednisolone in Infantile Spasms |
| NCT02299115 | PHASE3 | WITHDRAWN | Prednisolone Versus Vigabatrin in the First-line Treatment of Infantile Spasms |
| NCT02953548 | PHASE3 | COMPLETED | Trial of Cannabidiol (CBD; GWP42003-P) for Infantile Spasms (GWPCARE7) |
| NCT02954887 | PHASE3 | COMPLETED | Phase 3 Trial of Cannabidiol (CBD; GWP42003-P) for Infantile Spasms: Open-label Extension Phase (GWPCARE7) |
| NCT02270736 | PHASE3 | COMPLETED | Clinical Study to Investigate the Efficacy and Safety of NT 201 Compared to Placebo in the Treatment of Chronic Troublesome Drooling Associated With Neurological Disorders and/or Intellectual Disability |
| NCT02559102 | PHASE3 | COMPLETED | Dexmedetomidine Sedation Versus General Anaesthesia for Inguinal Hernia Surgery in Infants |
| NCT02757079 | PHASE3 | COMPLETED | Study of the Efficacy and Safety of NPC-15 for Sleep Disorders of Children With Neurodevelopmental Disorders |
| NCT06915480 | PHASE3 | RECRUITING | Reducing Missed Appointments |
| NCT07377032 | PHASE3 | RECRUITING | TAP-GRIN: Interventional Study on Patients With GRIN-related Neurodevelopmental Disorders |
| NCT03347526 | PHASE3 | SUSPENDED | A Novel Approach to Infantile Spasms |
| NCT03421496 | PHASE3 | TERMINATED | A Study to Assess Cannabidiol Oral Solution With Vigabatrin as Initial Therapy in Participants With Infantile Spasms |
| NCT00098475 | PHASE3 | ACTIVE_NOT_RECRUITING | Lenalidomide and Dexamethasone With or Without Thalidomide in Treating Patients With Multiple Myeloma |
| NCT00114101 | PHASE3 | ACTIVE_NOT_RECRUITING | Lenalidomide in Treating Patients With Multiple Myeloma Undergoing Autologous Stem Cell Transplant |
| NCT00644228 | PHASE3 | ACTIVE_NOT_RECRUITING | Lenalidomide and Dexamethasone With or Without Bortezomib in Treating Patients With Previously Untreated Multiple Myeloma |
| NCT00869206 | PHASE3 | COMPLETED | Zoledronic Acid in Treating Patients With Metastatic Breast Cancer, Metastatic Prostate Cancer, or Multiple Myeloma With Bone Involvement |
| NCT02091375 | PHASE3 | COMPLETED | Antiepileptic Efficacy Study of GWP42003-P in Children and Young Adults With Dravet Syndrome (GWPCARE1) |
| NCT02174094 | PHASE3 | WITHDRAWN | Clobazam as Adjunctive Therapy in Paediatric Patients Aged ≥1 to ≤16 Years With Dravet Syndrome |
| NCT02187809 | PHASE3 | TERMINATED | Safety and Tolerability of Clobazam as Adjunctive Therapy in Paediatric Patients Aged ≥1 to ≤16 Years With Dravet Syndrome |
| NCT02224573 | PHASE3 | COMPLETED | An Open Label Extension Study of Cannabidiol (GWP42003-P) in Children and Adults With Dravet or Lennox-Gastaut Syndromes |
| NCT02224703 | PHASE3 | COMPLETED | GWPCARE2 A Study to Investigate the Efficacy and Safety of Cannabidiol (GWP42003-P) in Children and Young Adults With Dravet Syndrome |
| NCT02318563 | PHASE3 | WITHDRAWN | Cannabidiol Oral Solution as an Adjunctive Therapy for Treatment of Participants With Inadequately Controlled Dravet Syndrome |
| NCT02682927 | PHASE3 | COMPLETED | A Trial of Two Fixed Doses of ZX008 (Fenfluramine HCl) in Children and Young Adults With Dravet Syndrome |
| NCT02823145 | PHASE3 | COMPLETED | An Open-Label Extension Trial to Assess the Long-Term Safety of ZX008 (Fenfluramine Hydrochloride HCl) Oral Solution in Children and Young Adults With Dravet Syndrome |
| NCT02926898 | PHASE3 | COMPLETED | A 2-Part Study to Investigate the Dose-Ranging Safety and Pharmacokinetics, Followed by the Efficacy and Safety of ZX008 (Fenfluramine Hydrochloride) Oral Solution as an Adjunctive Therapy in Children ≥ 2 Years Old and Young Adults With Dravet Syndrome |
| NCT03299842 | PHASE3 | TERMINATED | A Study to Assess the Usability of the Embrace Seizure Detection Watch in Children and Young Adults With Dravet Syndrome |
Related Atlas pages
- Associated diseases: seizures, benign familial infantile, 3, developmental and epileptic encephalopathy, 11, complex neurodevelopmental disorder, episodic ataxia, type 9, genetic developmental and epileptic encephalopathy, malignant migrating partial seizures of infancy, benign familial infantile epilepsy, Dravet syndrome, infantile spasms, intellectual disability
- Targeted by drugs: Cannabidiol, Etidocaine, Lacosamide, Lamotrigine, Lidocaine, Nabiximols, Phenytoin, Tetrodotoxin
- Disease cohort memberships (association, not causation — diseases whose associated-gene cohort lists this gene; a subset are also under Associated diseases): autism, autism spectrum disorder, benign familial infantile epilepsy, benign familial neonatal-infantile seizures 1, bipolar disorder, complex neurodevelopmental disorder, developmental and epileptic encephalopathy, developmental and epileptic encephalopathy, 1, developmental and epileptic encephalopathy, 11, developmental and epileptic encephalopathy, 12, developmental and epileptic encephalopathy, 30, developmental and epileptic encephalopathy, 76, developmental and/or epileptic encephalopathy with spike-wave activation in sleep, Dravet syndrome, dystonia 12, epilepsy, epilepsy with myoclonic atonic seizures, episodic ataxia, type 9, focal epilepsy, generalized epilepsy with febrile seizures plus, generalized epilepsy with febrile seizures plus, type 7, genetic developmental and epileptic encephalopathy, hereditary episodic ataxia, idiopathic generalized epilepsy, infantile spasms, intellectual disability, intellectual disability, autosomal dominant, Lennox-Gastaut syndrome, malignant migrating partial seizures of infancy, movement disorder, neuropathy, hereditary sensory and autonomic, type 2A, non-syndromic intellectual disability, periodontitis, pulmonary fibrosis and/or bone marrow failure, Telomere-related, 3, pyridoxine-dependent epilepsy, seizures, benign familial infantile, 3, seizures, benign familial infantile, 5, self-limited epilepsy with centrotemporal spikes, spastic ataxia