STXBP1
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Also known as hUNC18MUNC18-1UNC18rbSec1nSec1
Summary
STXBP1 (syntaxin binding protein 1, HGNC:11444) is a protein-coding gene on chromosome 9q34.11, encoding Syntaxin-binding protein 1 (P61764). Participates in the regulation of synaptic vesicle docking and fusion through interaction with GTP-binding proteins. It is haploinsufficient (ClinGen: sufficient evidence).
This gene encodes a syntaxin-binding protein. The encoded protein appears to play a role in release of neurotransmitters via regulation of syntaxin, a transmembrane attachment protein receptor. Mutations in this gene have been associated with infantile epileptic encephalopathy-4. Alternatively spliced transcript variants have been described.
Source: NCBI Gene 6812 — RefSeq curated summary.
At a glance
- Gene–disease (curated): genetic developmental and epileptic encephalopathy (Definitive, ClinGen) — +8 more curated relationships
- GWAS associations: 2
- Clinical variants (ClinVar): 1,241 total — 278 pathogenic, 110 likely-pathogenic
- Phenotypes (HPO): 97
- Druggable target: yes
- Dosage sensitivity (ClinGen): haploinsufficiency sufficient evidence, triplosensitivity no evidence
- MANE Select transcript:
NM_001032221
Identifiers
Gene identifiers
| Field | Value |
|---|---|
| HGNC ID | HGNC:11444 |
| Approved symbol | STXBP1 |
| Name | syntaxin binding protein 1 |
| Location | 9q34.11 |
| Locus type | gene with protein product |
| Status | Approved |
| Aliases | hUNC18, MUNC18-1, UNC18, rbSec1, nSec1 |
| Ensembl gene | ENSG00000136854 |
| Ensembl biotype | protein_coding |
| OMIM | 602926 |
| Entrez | 6812 |
Gene structure
Transcript identifiers
Ensembl transcripts: 31 — 21 protein_coding, 7 nonsense_mediated_decay, 3 protein_coding_CDS_not_defined
ENST00000373299, ENST00000373302, ENST00000476182, ENST00000494254, ENST00000496504, ENST00000625363, ENST00000626333, ENST00000626416, ENST00000626539, ENST00000627871, ENST00000628638, ENST00000628768, ENST00000635950, ENST00000636509, ENST00000636962, ENST00000637060, ENST00000637173, ENST00000637464, ENST00000637521, ENST00000637953, ENST00000647107, ENST00000650920, ENST00000704680, ENST00000704681, ENST00000713763, ENST00000713764, ENST00000713765, ENST00000713766, ENST00000944184, ENST00000944185, ENST00000944186
RefSeq mRNA: 12 — MANE Select: NM_001032221
NM_001032221, NM_001374306, NM_001374307, NM_001374308, NM_001374309, NM_001374310, NM_001374311, NM_001374312, NM_001374313, NM_001374314, NM_001374315, NM_003165
CCDS: CCDS35146, CCDS6874, CCDS94486, CCDS94487, CCDS94488, CCDS94489
Canonical transcript exons
ENST00000373299 — 19 exons
| Exon | Start | End |
|---|---|---|
| ENSE00000927169 | 127651603 | 127651652 |
| ENSE00000927170 | 127653715 | 127653796 |
| ENSE00000927171 | 127658375 | 127658451 |
| ENSE00000927172 | 127660030 | 127660108 |
| ENSE00000927173 | 127661102 | 127661205 |
| ENSE00000927174 | 127663205 | 127663353 |
| ENSE00000927175 | 127665247 | 127665331 |
| ENSE00000927176 | 127666166 | 127666296 |
| ENSE00000927177 | 127668080 | 127668187 |
| ENSE00000927178 | 127669898 | 127669958 |
| ENSE00000927182 | 127676644 | 127676753 |
| ENSE00000927183 | 127678431 | 127678532 |
| ENSE00003487864 | 127672051 | 127672116 |
| ENSE00003577740 | 127675804 | 127675942 |
| ENSE00003612856 | 127673181 | 127673261 |
| ENSE00003760044 | 127680157 | 127680242 |
| ENSE00003760296 | 127682406 | 127682560 |
| ENSE00004021180 | 127690775 | 127692699 |
| ENSE00004021187 | 127612277 | 127612440 |
Expression profiles
Bgee: expression breadth ubiquitous, 287 present calls, max score 99.87.
FANTOM5 (CAGE): breadth ubiquitous, TPM avg 51.4601 / max 2411.4072, expressed in 1765 samples.
FANTOM5 promoters (13 alternative TSS)
| Promoter ID | TPM avg | Samples expressed |
|---|---|---|
| 98621 | 45.9204 | 1715 |
| 98620 | 1.6968 | 771 |
| 98619 | 1.6191 | 809 |
| 98615 | 1.0846 | 491 |
| 98634 | 0.5186 | 191 |
| 98635 | 0.2717 | 97 |
| 98614 | 0.1484 | 66 |
| 98633 | 0.0532 | 13 |
| 98623 | 0.0492 | 22 |
| 98618 | 0.0403 | 27 |
Top tissues by expression
293 total, by Bgee expression score (0-100, higher = more expressed):
| Tissue | Anatomy ID | Expression score | Quality |
|---|---|---|---|
| middle temporal gyrus | UBERON:0002771 | 99.87 | gold quality |
| lateral nuclear group of thalamus | UBERON:0002736 | 99.83 | gold quality |
| Brodmann (1909) area 23 | UBERON:0013554 | 99.74 | gold quality |
| pons | UBERON:0000988 | 99.73 | gold quality |
| superior frontal gyrus | UBERON:0002661 | 99.70 | gold quality |
| primary visual cortex | UBERON:0002436 | 99.68 | gold quality |
| right hemisphere of cerebellum | UBERON:0014890 | 99.66 | gold quality |
| substantia nigra pars compacta | UBERON:0001965 | 99.65 | gold quality |
| cerebellar hemisphere | UBERON:0002245 | 99.64 | gold quality |
| occipital lobe | UBERON:0002021 | 99.63 | gold quality |
| postcentral gyrus | UBERON:0002581 | 99.63 | gold quality |
| paraflocculus | UBERON:0005351 | 99.63 | gold quality |
| parietal lobe | UBERON:0001872 | 99.62 | gold quality |
| cerebellum | UBERON:0002037 | 99.59 | gold quality |
| frontal pole | UBERON:0002795 | 99.59 | gold quality |
| cerebellar cortex | UBERON:0002129 | 99.57 | gold quality |
| Brodmann (1909) area 10 | UBERON:0013541 | 99.52 | gold quality |
| orbitofrontal cortex | UBERON:0004167 | 99.51 | gold quality |
| substantia nigra pars reticulata | UBERON:0001966 | 99.49 | gold quality |
| Brodmann (1909) area 46 | UBERON:0006483 | 99.43 | gold quality |
| entorhinal cortex | UBERON:0002728 | 99.40 | gold quality |
| superior vestibular nucleus | UBERON:0007227 | 99.37 | gold quality |
| lateral globus pallidus | UBERON:0002476 | 99.28 | gold quality |
| frontal cortex | UBERON:0001870 | 99.24 | gold quality |
| dorsolateral prefrontal cortex | UBERON:0009834 | 99.22 | gold quality |
| right frontal lobe | UBERON:0002810 | 99.21 | gold quality |
| endothelial cell | CL:0000115 | 99.20 | gold quality |
| Brodmann (1909) area 9 | UBERON:0013540 | 99.14 | gold quality |
| prefrontal cortex | UBERON:0000451 | 99.12 | gold quality |
| CA1 field of hippocampus | UBERON:0003881 | 99.07 | gold quality |
Single-cell (SCXA)
Detected in 6 experiment(s), a significant marker in 5.
| Experiment | Marker? | Max mean expression |
|---|---|---|
| E-HCAD-35 | yes | 46.39 |
| E-GEOD-93593 | yes | 20.57 |
| E-MTAB-5061 | yes | 16.08 |
| E-GEOD-84465 | yes | 7.28 |
| E-HCAD-13 | no | 2.97 |
| E-ANND-3 | no | 0.00 |
Regulation
Is transcription factor: no
Upstream regulators (CollecTRI, top): AP1, HNF4A, HOXA10, PLAGL2, STX1B, TCF3, TP63
miRNA regulators (miRDB)
144 targeting STXBP1, 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-5692A | 100.00 | 74.40 | 6850 |
| HSA-MIR-6127 | 100.00 | 66.76 | 2188 |
| HSA-MIR-190A-3P | 100.00 | 80.35 | 5520 |
| HSA-MIR-4510 | 100.00 | 66.60 | 2050 |
| HSA-MIR-6129 | 100.00 | 66.46 | 2080 |
| HSA-MIR-6130 | 100.00 | 66.69 | 2012 |
| HSA-MIR-6133 | 100.00 | 66.48 | 2064 |
| 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-98-3P | 100.00 | 74.08 | 3907 |
| HSA-MIR-3662 | 99.99 | 73.82 | 5684 |
| HSA-LET-7F-2-3P | 99.98 | 70.98 | 2588 |
| HSA-MIR-1185-1-3P | 99.98 | 71.04 | 2593 |
| HSA-MIR-1185-2-3P | 99.98 | 71.04 | 2593 |
| HSA-MIR-4775 | 99.98 | 75.00 | 6394 |
| HSA-MIR-4789-5P | 99.98 | 70.76 | 2721 |
| HSA-MIR-3605-5P | 99.96 | 67.12 | 932 |
| HSA-MIR-6825-5P | 99.96 | 69.81 | 3431 |
| HSA-MIR-590-3P | 99.96 | 74.34 | 6478 |
| HSA-MIR-141-3P | 99.94 | 72.79 | 2421 |
| HSA-MIR-200A-3P | 99.94 | 72.68 | 2420 |
| HSA-MIR-218-5P | 99.93 | 72.22 | 2103 |
| HSA-MIR-497-5P | 99.92 | 71.83 | 2674 |
| HSA-MIR-6809-3P | 99.91 | 71.45 | 3814 |
| HSA-MIR-4753-3P | 99.90 | 71.03 | 3786 |
| HSA-MIR-15A-5P | 99.90 | 72.80 | 2787 |
| HSA-MIR-15B-5P | 99.90 | 72.78 | 2798 |
| HSA-MIR-16-5P | 99.90 | 72.80 | 2780 |
| HSA-MIR-195-5P | 99.90 | 72.81 | 2805 |
Functional genomics
ClinGen dosage: haploinsufficiency 3 (sufficient evidence), triplosensitivity 0 (no evidence). ClinGen Gene Dosage Map
Literature-anchored findings (GeneRIF, showing 40)
- Munc18a acts through direct and indirect interactions with X11 proteins and powerfully regulates APP metabolism and Abeta secretion. (PMID:12016213)
- Syntaxin/Munc18 interactions in the late events during vesicle fusion and release in exocytosis (PMID:15175344)
- Ser-313, a Munc18-1 protein kinase C phosphorylation site, and Thr-574, a cyclin-dependent kinase 5 phosphorylation site, regulate Munc18-1/syntaxin1A interaction in HEK293-S3 and chromaffin cells (PMID:15489225)
- MUNC18-1 regulates early and late stages of exocytosis via syntaxin-independent protein interactions. (PMID:15563604)
- Mediates exocytosis and decreases beta-amyloid peptide formation in Alzheimer disease. (PMID:16413130)
- syntaxin1A possesses distinct inhibitory and stimulatory domains that interact with ENaC subunits, which critically determines the overall ENaC functionality/regulation under distinct physiological conditions (PMID:17200691)
- analysis of the spatially distinct modes of munc18-syntaxin 1 interaction (PMID:17264080)
- proteomic assessments of membrane microdomains in prefrontal cortex and validation in two brain series, strongly implicates LAMP, STXBP1 and BASP1 in schizophreina and supports the view of a neuritic and synaptic dysfunction in the neuropathology (PMID:18268500)
- De novo mutations in the gene encoding STXBP1 cause early infantile epileptic encephalopathy. (PMID:18469812)
- Syntaxin 1 interaction with the dopamine transporter promotes amphetamine-induced dopamine efflux. (PMID:18617632)
- Results identified syntaxin binding protein I that showed elevated levels of protein carbonyls in inferior parietal lobule (IPL) from subjects with mild cognitive impairment. (PMID:19686046)
- This protein has been found differentially expressed in thalami from patients with schizophrenia. (PMID:20471030)
- we summarize these recent advances and attempt to propose an updated model of the pleiotropic functions of Munc18-1 in neuroexocytosis–{REVIEW} (PMID:20681955)
- STXBP1 mutational analysis should be considered in the diagnostic evaluation of this challenging group of patients. (PMID:20876469)
- Collectively, STXBP1 aberrations can account for about one-third individuals with EIEE (14 of 43). These genetic and biologic data clearly showed that haploinsufficiency of STXBP1 is the important cause for cryptogenic EIEE. (PMID:20887364)
- two de novo nucleotide alterations of STXBP1 were identified in two patients with Ohtahara and West syndrome, respectively; first case report showing that STXBP1 mutations caused West syndrome from the onset of epilepsy (PMID:21204804)
- By combining this and previous study, 3 de novo truncating STXBP1 mutations in 145 sporadic non-syndromic intellectual disability (NSID) cases (~2%)have been identified. (PMID:21364700)
- Exocytotic dysfunctions in schizophrenia are probably related to an imbalance of the interaction between munc18-1a and SNARE (mainly syntaxin-1A) complex. (PMID:21669024)
- mutation resulting in encephalopathy presenting as infantile spasms and generalized tremor (PMID:21762454)
- mutations found in early onset epileptic encephalopathy and Ohtahara syndrome (PMID:21770924)
- Association of genomic deletions in the STXBP1 gene with Ohtahara syndrome. (PMID:22211739)
- A protein encoded by this locus was found to be differentially expressed in postmortem brains from patients with atypical frontotemporal lobar degeneration. (PMID:22360420)
- Munc18-1 plays a key role in the dynamics of trans-SNARE complex assembly and/or stabilization, a process that is necessary for the docking of the outer acrosomal membrane to the plasma membrane and subsequent fusion pore opening. (PMID:23091057)
- this study described the clinical features of six new patients with an STXBP1 encephalopathy presenting as Ohtahara syndrome (2/6, 33%), West syndrome (1/65, 2%), and nonsyndromic early onset EE (3/64, 5%). (PMID:23409955)
- Double knockdown of Munc18-1 and Munc18-2 in mast cells eliminates both IgE-dependent and ionomycin-induced degranulation and causes a significant reduction in syntaxin-11 without altering expressions of the other syntaxin isoforms examined. (PMID:23487749)
- N-peptide and LE mutation have no effect on the global conformation of the Munc18a-Syx1a complex. (PMID:23858467)
- STXBP1 mutations associated with early epileptic encephalopathies. (PMID:24189369)
- GABRA1 and STXBP1 make a significant contribution to Dravet syndrome (PMID:24623842)
- Recruitment of STXBP1 by the Rab27A effector SYTL4 promotes Weibel-Palade body exocytosis. (PMID:24700782)
- STXBP1 gene mutation was found in 1 out of 11 patients (PMID:25008876)
- In vitro interaction assays indicated that Doc2b is required to bridge the interaction between Munc18c and Munc18-1 in the macromolecular complex; Munc18c and Munc18-1 failed to associate in the absence of Doc2b (PMID:25190515)
- A de novo mutation in STXBP1 was detected with exome sequencing together with profound impairment of complex I of the mitochondrial respiratory chain on muscle biopsy. Findings implicate a secondary impairment of mitochondrial function. (PMID:25418441)
- We report the case of a 19-month-old child with Ohtahara syndrome who displays a previously unreported mutation in STXBP1 This mutation is located in a donor splice site and eliminates exon 14, resulting in a truncated protein (PMID:25631041)
- The case described suggests a relationship between the Rett syndrome and the STXBP1 gene not described so far, making the search for STXBP1 gene mutations advisable in patients with Rett syndrome and early onset of epilepsy. (PMID:25714420)
- Epileptic encephalopathy related to mutations in the STXBP1 genes. (PMID:25818041)
- partial STXBP1 loss of function robustly impairs neurotransmitter release in human neurons, and suggest that heterozygous STXBP1 mutations cause early epileptic encephalopathy specifically through a presynaptic impairment. (PMID:26280581)
- We conducted a cohort study to analyze STXBP1 in 42 patients with epileptic encephalopathy. We identified four novel mutations: two splicing mutations, a frameshift mutation, and a nonsense mutation. (PMID:26384463)
- 9q33.3q34.11 microdeletion including STXBP1 gene identified in four patients with intellectual disability, epilepsy, nail dysplasia and bone malformations. (PMID:26395556)
- de novo mutations in early-onset epilepsy (PMID:26514728)
- M18L was localized to presynaptic inhibitory terminals, and was associated with cognitive function and protection from dementia in an elderly (PMID:26628003)
Cross-species orthologs
6 orthologs
| Organism | Symbol | Gene ID |
|---|---|---|
| danio_rerio | stxbp1a | ENSDARG00000001994 |
| danio_rerio | stxbp1b | ENSDARG00000056036 |
| mus_musculus | Stxbp1 | ENSMUSG00000026797 |
| rattus_norvegicus | Stxbp1 | ENSRNOG00000015420 |
| drosophila_melanogaster | Rop | FBGN0004574 |
| caenorhabditis_elegans | WBGENE00006757 |
Paralogs (7): STXBP2 (ENSG00000076944), SCFD1 (ENSG00000092108), STXBP3 (ENSG00000116266), VPS45 (ENSG00000136631), VPS33A (ENSG00000139719), VPS33B (ENSG00000184056), SCFD2 (ENSG00000184178)
Protein
Protein identifiers
Syntaxin-binding protein 1 — P61764 (reviewed: P61764)
Alternative names: MUNC18-1, N-Sec1, Protein unc-18 homolog 1, Protein unc-18 homolog A, p67
All UniProt accessions (17): A0A096LP33, A0A096LP52, A0A0D9SG72, A0A1B0GTD8, A0A1B0GTP9, A0A1B0GUQ2, P61764, A0A1B0GVQ5, A0A1B0GVV9, A0A1B0GW76, A0A1B0GWF2, A0A2R8Y5D4, A0A994J7L2, A0AAQ5BGV0, A0AAQ5BGV2, A0AAQ5BGW4, A0AAQ5BGX7
UniProt curated annotations — full annotation on UniProt →
Function. Participates in the regulation of synaptic vesicle docking and fusion through interaction with GTP-binding proteins. Essential for neurotransmission and binds syntaxin, a component of the synaptic vesicle fusion machinery probably in a 1:1 ratio. Can interact with syntaxins 1, 2, and 3 but not syntaxin 4. Involved in the release of neurotransmitters from neurons through interacting with SNARE complex component STX1A and mediating the assembly of the SNARE complex at synaptic membranes. May play a role in determining the specificity of intracellular fusion reactions.
Subunit / interactions. Interacts with SYTL4. Interacts with STX1A. The interaction recruits SNARE complex components SNAP25 and VAMP2 and mediates neurotransmitter release from neurons. Interacts with alpha-synuclein/SNCA; this interaction controls SNCA self-replicating aggregation. Interacts with RAB3A; this interaction promotes RAB3A dissociation from the vesicle membrane. Interacts with CABP5.
Subcellular location. Cytoplasm. Cytosol. Membrane.
Tissue specificity. Brain and spinal cord. Highly enriched in axons.
Disease relevance. Developmental and epileptic encephalopathy 4 (DEE4) [MIM:612164] A severe form of epilepsy characterized by frequent tonic seizures or spasms beginning in infancy with a specific EEG finding of suppression-burst patterns, characterized by high-voltage bursts alternating with almost flat suppression phases. Affected individuals have neonatal or infantile onset of seizures, profound intellectual disability, and MRI evidence of brain hypomyelination. The disease is caused by variants affecting the gene represented in this entry.
Similarity. Belongs to the STXBP/unc-18/SEC1 family.
Isoforms (2)
| UniProt ID | Names | Canonical? |
|---|---|---|
| P61764-1 | 1, A | yes |
| P61764-2 | 2, BE, HUNC18b |
RefSeq proteins (12): NP_001027392, NP_001361235, NP_001361236, NP_001361237, NP_001361238, NP_001361239, NP_001361240, NP_001361241, NP_001361242, NP_001361243, NP_001361244, NP_003156 (=MANE)
Domains & families (InterPro)
| ID | Name | Type |
|---|---|---|
| IPR001619 | Sec1-like | Family |
| IPR027482 | Sec1-like_dom2 | Homologous_superfamily |
| IPR036045 | Sec1-like_sf | Homologous_superfamily |
| IPR043127 | Sec-1-like_dom3a | Homologous_superfamily |
| IPR043154 | Sec-1-like_dom1 | Homologous_superfamily |
Pfam: PF00995
UniProt features (31 total): sequence variant 24, modified residue 5, chain 1, splice variant 1
Structure
Experimental structures (PDB)
1 structures.
| PDB | Method | Resolution (Å) |
|---|---|---|
| 6L03 | X-RAY DIFFRACTION | 2.08 |
Predicted structure (AlphaFold)
| Model | pLDDT | Fraction very-high |
|---|---|---|
| AF-P61764-F1 | 90.62 | 0.79 |
Functional residue map
Curated UniProt residues grouped by drug-discovery relevance — catalytic, ligand-binding, modification, and mutation-validated positions. Source: UniProtKB sequence features.
Post-translational modifications (5): 476, 509, 511, 516, 593
Function
Pathways and Gene Ontology
Reactome pathways
12 pathways
| ID | Pathway |
|---|---|
| R-HSA-422356 | Regulation of insulin secretion |
| R-HSA-6794361 | Neurexins and neuroligins |
| R-HSA-181429 | Serotonin Neurotransmitter Release Cycle |
| R-HSA-181430 | Norepinephrine Neurotransmitter Release Cycle |
| R-HSA-210500 | Glutamate Neurotransmitter Release Cycle |
| R-HSA-212676 | Dopamine Neurotransmitter Release Cycle |
| R-HSA-264642 | Acetylcholine Neurotransmitter Release Cycle |
| R-HSA-888590 | GABA synthesis, release, reuptake and degradation |
| R-HSA-112316 | Neuronal System |
| R-HSA-1430728 | Metabolism |
| R-HSA-163685 | Integration of energy metabolism |
| R-HSA-6794362 | Protein-protein interactions at synapses |
MSigDB gene sets: 676 (showing top):
GOBP_NEGATIVE_REGULATION_OF_PROTEIN_CONTAINING_COMPLEX_ASSEMBLY, GOBP_SINGLE_FERTILIZATION, GNF2_RTN1, GOBP_POSITIVE_REGULATION_OF_SYNAPTIC_TRANSMISSION_GLUTAMATERGIC, GOBP_NEGATIVE_REGULATION_OF_NEURON_APOPTOTIC_PROCESS, GOBP_GLUTAMATE_SECRETION, GOBP_REGULATION_OF_VESICLE_FUSION, MODY_HIPPOCAMPUS_POSTNATAL, GOBP_POSITIVE_REGULATION_OF_CALCIUM_ION_DEPENDENT_EXOCYTOSIS, GOBP_RESPONSE_TO_ESTRADIOL, GOBP_REGULATION_OF_ORGANIC_ACID_TRANSPORT, GOBP_VESICLE_LOCALIZATION, GOBP_INTRACELLULAR_PROTEIN_TRANSPORT, TGCTGCT_MIR15A_MIR16_MIR15B_MIR195_MIR424_MIR497, GOBP_RESPONSE_TO_PEPTIDE
GO Biological Process (37): platelet degranulation (GO:0002576), developmental process involved in reproduction (GO:0003006), intracellular protein transport (GO:0006886), obsolete vesicle docking involved in exocytosis (GO:0006904), neuromuscular synaptic transmission (GO:0007274), axon target recognition (GO:0007412), regulation of synaptic vesicle priming (GO:0010807), synaptic vesicle priming (GO:0016082), synaptic vesicle maturation (GO:0016188), negative regulation of protein-containing complex assembly (GO:0031333), regulation of synaptic vesicle fusion to presynaptic active zone membrane (GO:0031630), negative regulation of synaptic transmission, GABAergic (GO:0032229), response to estradiol (GO:0032355), SNARE complex assembly (GO:0035493), regulation of SNARE complex assembly (GO:0035542), positive regulation of mast cell degranulation (GO:0043306), negative regulation of neuron apoptotic process (GO:0043524), positive regulation of calcium ion-dependent exocytosis (GO:0045956), protein stabilization (GO:0050821), neuron apoptotic process (GO:0051402), long-term synaptic depression (GO:0060292), platelet aggregation (GO:0070527), cellular response to type II interferon (GO:0071346), protein localization to plasma membrane (GO:0072659), presynaptic dense core vesicle exocytosis (GO:0099525), obsolete positive regulation of vesicle docking (GO:0106022), positive regulation of glutamate secretion, neurotransmission (GO:1903296), regulation of acrosomal vesicle exocytosis (GO:2000367), exocytosis (GO:0006887), neurotransmitter secretion (GO:0007269), protein transport (GO:0015031), vesicle-mediated transport (GO:0016192), regulation of vesicle fusion (GO:0031338), regulated exocytosis (GO:0045055), positive regulation of exocytosis (GO:0045921), establishment of localization in cell (GO:0051649), regulation of regulated secretory pathway (GO:1903305)
GO Molecular Function (9): SNARE binding (GO:0000149), RNA binding (GO:0003723), syntaxin-1 binding (GO:0017075), protein kinase binding (GO:0019901), protein domain specific binding (GO:0019904), syntaxin binding (GO:0019905), identical protein binding (GO:0042802), phospholipase binding (GO:0043274), protein binding (GO:0005515)
GO Cellular Component (20): nucleoplasm (GO:0005654), cytoplasm (GO:0005737), mitochondrion (GO:0005739), cytosol (GO:0005829), plasma membrane (GO:0005886), secretory granule (GO:0030141), axon (GO:0030424), platelet alpha granule (GO:0031091), protein-containing complex (GO:0032991), phagocytic vesicle (GO:0045335), perinuclear region of cytoplasm (GO:0048471), extracellular exosome (GO:0070062), parallel fiber to Purkinje cell synapse (GO:0098688), postsynapse (GO:0098794), presynaptic active zone cytoplasmic component (GO:0098831), extrinsic component of presynaptic membrane (GO:0098888), glutamatergic synapse (GO:0098978), presynaptic cytosol (GO:0099523), membrane (GO:0016020), presynapse (GO:0098793)
Reactome top-level categories
Rollup of top-5 pathways:
| Category | Pathways |
|---|---|
| Neurotransmitter release cycle | 6 |
| Integration of energy metabolism | 1 |
| Protein-protein interactions at synapses | 1 |
| Metabolism | 1 |
| Neuronal System | 1 |
GO top-level categories
Rollup of top GO terms by namespace:
| Category | Terms |
|---|---|
| cellular anatomical structure | 7 |
| regulation of protein-containing complex assembly | 3 |
| protein-containing complex assembly | 3 |
| protein binding | 3 |
| cytoplasm | 3 |
| synapse | 3 |
| regulated exocytosis | 1 |
| establishment of localization in cell | 1 |
| reproductive process | 1 |
| developmental process | 1 |
| intracellular protein localization | 1 |
| protein transport | 1 |
| intracellular transport | 1 |
| chemical synaptic transmission | 1 |
| cell communication | 1 |
| axonogenesis | 1 |
| synaptic vesicle priming | 1 |
| synaptic vesicle exocytosis | 1 |
| exocytic process | 1 |
| vesicle organization | 1 |
| developmental maturation | 1 |
| negative regulation of cellular component organization | 1 |
| regulation of vesicle fusion | 1 |
| synaptic vesicle fusion to presynaptic active zone membrane | 1 |
| regulation of synaptic vesicle membrane organization | 1 |
| regulation of synaptic transmission, GABAergic | 1 |
| negative regulation of synaptic transmission | 1 |
| synaptic transmission, GABAergic | 1 |
| response to lipid | 1 |
| response to oxygen-containing compound | 1 |
| vesicle fusion | 1 |
| SNARE complex assembly | 1 |
| positive regulation of leukocyte degranulation | 1 |
| mast cell degranulation | 1 |
| regulation of mast cell degranulation | 1 |
| negative regulation of apoptotic process | 1 |
| regulation of neuron apoptotic process | 1 |
| neuron apoptotic process | 1 |
| calcium-ion regulated exocytosis | 1 |
| regulation of calcium ion-dependent exocytosis | 1 |
Protein interactions and networks
STRING
2595 interactions, top by confidence (×1000):
| Protein A | Protein B | Partner UniProt | Score |
|---|---|---|---|
| STXBP1 | STX1A | Q16623 | 998 |
| STXBP1 | SNAP25 | P13795 | 981 |
| STXBP1 | UNC13B | O14795 | 970 |
| STXBP1 | STX1B | P61266 | 940 |
| STXBP1 | APBA1 | Q02410 | 940 |
| STXBP1 | VAMP2 | P19065 | 938 |
| STXBP1 | SYTL4 | Q96C24 | 925 |
| STXBP1 | SYT1 | P21579 | 891 |
| STXBP1 | SPTAN1 | Q13813 | 887 |
| STXBP1 | PCDH19 | Q8TAB3 | 872 |
| STXBP1 | CDKL5 | O76039 | 866 |
| STXBP1 | KCNQ2 | O43526 | 845 |
| STXBP1 | SCN1A | P35498 | 844 |
| STXBP1 | PCDH10 | Q9P2E7 | 842 |
| STXBP1 | SCN2A | Q99250 | 833 |
IntAct
202 interactions, top by confidence:
| A | B | Type | Score |
|---|---|---|---|
| STX11 | SNAP23 | psi-mi:“MI:0914”(association) | 0.900 |
| STX19 | STXBP1 | psi-mi:“MI:0915”(physical association) | 0.850 |
| STXBP1 | STX19 | psi-mi:“MI:0915”(physical association) | 0.850 |
| STX19 | STXBP1 | psi-mi:“MI:0914”(association) | 0.850 |
| STX11 | STXBP1 | psi-mi:“MI:0915”(physical association) | 0.830 |
| STXBP1 | STX11 | psi-mi:“MI:0915”(physical association) | 0.830 |
| SOD1 | CCS | psi-mi:“MI:0914”(association) | 0.830 |
| STXBP1 | TRIM38 | psi-mi:“MI:0915”(physical association) | 0.810 |
| TRIM38 | STXBP1 | psi-mi:“MI:0915”(physical association) | 0.810 |
| TUSC3 | RPN2 | psi-mi:“MI:0914”(association) | 0.730 |
| STXBP1 | STX5 | psi-mi:“MI:0915”(physical association) | 0.720 |
| CFTR | ESYT2 | psi-mi:“MI:2364”(proximity) | 0.710 |
BioGRID (206): STXBP1 (Reconstituted Complex), STXBP1 (Reconstituted Complex), STXBP1 (Reconstituted Complex), STXBP1 (Reconstituted Complex), STX11 (Two-hybrid), TRIM38 (Two-hybrid), STX19 (Two-hybrid), STXBP1 (Affinity Capture-MS), SYTL4 (Affinity Capture-Western), STX3 (Affinity Capture-Western), STX2 (Affinity Capture-Western), STXBP1 (Affinity Capture-Western), STXBP1 (Affinity Capture-MS), STXBP1 (Affinity Capture-MS), STXBP1 (Affinity Capture-MS)
ESM2 similar proteins: B0XDC4, B2RY04, B3LF48, B3M383, B4GEU5, B4JT42, B4K5R2, B4NBB0, O00186, O08599, O18637, O74534, O94590, P22213, P30619, P34260, P34529, P34815, P38932, P61763, P61764, P61765, P97393, Q07327, Q14185, Q15833, Q16JS8, Q18891, Q24179, Q28288, Q296Q5, Q54QC8, Q5D892, Q5R6D2, Q5VNU3, Q60770, Q62753, Q64324, Q6R748, Q7QCW2
Diamond homologs: O00186, O08599, P34815, P61763, P61764, P61765, Q07327, Q15833, Q28288, Q29268, Q54QC8, Q5R6D2, Q60770, Q62753, Q64324, Q6R748, Q9SZ77, Q9C5X3, O94590, Q5VNU3, O74534, P22213, Q62991, Q7XWP3, Q8BRF7, Q8WVM8, Q9C5P7, Q9SL48
SIGNOR signaling
12 interactions.
| A | Effect | B | Mechanism |
|---|---|---|---|
| STXBP1 | “up-regulates activity” | SNARE_complex | “transcriptional regulation” |
| PRKCE | “down-regulates quantity” | STXBP1 | phosphorylation |
| APBA1 | “up-regulates activity” | STXBP1 | binding |
| APBA3 | “up-regulates activity” | STXBP1 | binding |
| APBA2 | “up-regulates activity” | STXBP1 | binding |
| STXBP1 | “up-regulates activity” | STX1A | binding |
| PRKCA | unknown | STXBP1 | phosphorylation |
| PRKCB | unknown | STXBP1 | phosphorylation |
| PRKCG | unknown | STXBP1 | phosphorylation |
| PRKCB | “down-regulates activity” | STXBP1 | phosphorylation |
| PRKCG | “down-regulates activity” | STXBP1 | phosphorylation |
| STXBP1 | “up-regulates activity” | NRXN1 | binding |
Enriched among interaction partners
Reactome pathways and GO biological processes over-represented among this gene’s 159 IntAct physical interaction partners (hypergeometric vs the genome-wide background, BH-FDR, gene-set size 15–500, ranked by fold). A functional readout of the neighbourhood — distinct from this gene’s own memberships above, and biased toward well-studied / hub proteins, so read it as themes rather than proof.
Reactome pathways:
| Pathway | Partners | Fold | FDR |
|---|---|---|---|
| Bacterial Infection Pathways | 5 | 15.7× | 5e-03 |
| Response to elevated platelet cytosolic Ca2+ | 6 | 9.2× | 9e-03 |
| Platelet activation, signaling and aggregation | 7 | 6.9× | 1e-02 |
GO biological processes:
| GO term | Partners | Fold | FDR |
|---|---|---|---|
| obsolete vesicle docking | 8 | 42.9× | 7e-09 |
| vesicle fusion | 5 | 21.0× | 8e-04 |
| exocytosis | 10 | 10.6× | 1e-05 |
| intracellular protein transport | 12 | 5.4× | 7e-04 |
Disease & clinical
Clinical variants and AI predictions
ClinVar
1241 variants total. Per-class counts are floors (≥ shown; pagination cap):
| Classification | Count (floor) |
|---|---|
| Pathogenic | 278 |
| Likely pathogenic | 110 |
| Uncertain significance | 292 |
| Likely benign | 375 |
| Benign | 70 |
Top pathogenic / likely-pathogenic (30)
| Variant ID | HGVS | Classification |
|---|---|---|
| 1064621 | NM_001032221.6(STXBP1):c.1249G>C (p.Gly417Arg) | Pathogenic |
| 1069951 | NM_001032221.6(STXBP1):c.980dup (p.Ser328fs) | Pathogenic |
| 1071250 | NM_001032221.6(STXBP1):c.1359_1360insC (p.Ser454fs) | Pathogenic |
| 1071661 | NM_001032221.6(STXBP1):c.1641_1642insC (p.Asn548fs) | Pathogenic |
| 1184507 | NM_001032221.6(STXBP1):c.1282C>T (p.Gln428Ter) | Pathogenic |
| 1201358 | NM_001032221.6(STXBP1):c.1726C>T (p.Gln576Ter) | Pathogenic |
| 1202095 | NM_001032221.6(STXBP1):c.616C>T (p.Gln206Ter) | Pathogenic |
| 1298369 | NM_001032221.6(STXBP1):c.122T>G (p.Leu41Arg) | Pathogenic |
| 1298370 | NM_001032221.6(STXBP1):c.1227_1229del (p.Leu410del) | Pathogenic |
| 1298371 | NM_003165.6(STXBP1):c.664-1delG | Pathogenic |
| 1298373 | NM_001032221.6(STXBP1):c.733C>A (p.His245Asn) | Pathogenic |
| 1325882 | NM_001032221.6(STXBP1):c.1392del (p.Lys465fs) | Pathogenic |
| 1341561 | NM_001032221.6(STXBP1):c.898del (p.Ser300fs) | Pathogenic |
| 1382874 | NM_001032221.6(STXBP1):c.323_325+1del | Pathogenic |
| 1388120 | NM_001032221.6(STXBP1):c.225T>G (p.Tyr75Ter) | Pathogenic |
| 1398686 | NM_001032221.6(STXBP1):c.971del (p.Met324fs) | Pathogenic |
| 1400645 | NM_001032221.6(STXBP1):c.1503T>A (p.Tyr501Ter) | Pathogenic |
| 1403332 | NM_001032221.6(STXBP1):c.663+5G>A | Pathogenic |
| 1413674 | NM_001032221.6(STXBP1):c.1359+3A>C | Pathogenic |
| 1435255 | NM_001032221.6(STXBP1):c.325+4A>T | Pathogenic |
| 1448441 | NM_001032221.6(STXBP1):c.1092dup (p.Leu365fs) | Pathogenic |
| 1453163 | NC_000009.11:g.(?130374683)(130416095_?)del | Pathogenic |
| 1453697 | NM_001032221.6(STXBP1):c.920_921del (p.Leu307fs) | Pathogenic |
| 1454627 | NC_000009.12:g.127660030_127660059del | Pathogenic |
| 1456242 | NC_000009.12:g.127669899del | Pathogenic |
| 1457463 | NM_001032221.6(STXBP1):c.175G>A (p.Glu59Lys) | Pathogenic |
| 1460075 | NM_001032221.6(STXBP1):c.520del (p.Glu174fs) | Pathogenic |
| 1475067 | NM_001032221.6(STXBP1):c.1627G>C (p.Gly543Arg) | Pathogenic |
| 1497566 | NM_001032221.6(STXBP1):c.167C>G (p.Thr56Arg) | Pathogenic |
| 160070 | NM_001032221.6(STXBP1):c.734A>G (p.His245Arg) | Pathogenic |
SpliceAI
2851 predictions. Top by Δscore:
| Variant | Effect | Δscore |
|---|---|---|
| 9:127612437:GAGA:G | donor_gain | 1.0000 |
| 9:127612439:GA:G | donor_gain | 1.0000 |
| 9:127612441:G:GG | donor_gain | 1.0000 |
| 9:127651598:TTTA:T | acceptor_loss | 1.0000 |
| 9:127651601:A:AG | acceptor_gain | 1.0000 |
| 9:127651602:G:GA | acceptor_gain | 1.0000 |
| 9:127651602:GA:G | acceptor_gain | 1.0000 |
| 9:127651602:GAGA:G | acceptor_gain | 1.0000 |
| 9:127651602:GAGAT:G | acceptor_gain | 1.0000 |
| 9:127653709:TTGCA:T | acceptor_loss | 1.0000 |
| 9:127653710:TGCA:T | acceptor_loss | 1.0000 |
| 9:127653711:GCA:G | acceptor_loss | 1.0000 |
| 9:127653712:CAGGT:C | acceptor_loss | 1.0000 |
| 9:127653713:A:G | acceptor_loss | 1.0000 |
| 9:127653795:GA:G | donor_gain | 1.0000 |
| 9:127653797:G:GG | donor_gain | 1.0000 |
| 9:127654902:C:CA | acceptor_gain | 1.0000 |
| 9:127658371:CTAGT:C | acceptor_loss | 1.0000 |
| 9:127658372:TAGTT:T | acceptor_loss | 1.0000 |
| 9:127658373:A:AG | acceptor_gain | 1.0000 |
| 9:127658373:A:C | acceptor_loss | 1.0000 |
| 9:127658374:G:GC | acceptor_gain | 1.0000 |
| 9:127658374:GT:G | acceptor_gain | 1.0000 |
| 9:127658374:GTT:G | acceptor_gain | 1.0000 |
| 9:127658374:GTTGT:G | acceptor_gain | 1.0000 |
| 9:127660029:GTCC:G | acceptor_gain | 1.0000 |
| 9:127660105:GACT:G | donor_gain | 1.0000 |
| 9:127660109:G:GG | donor_gain | 1.0000 |
| 9:127661100:A:AG | acceptor_gain | 1.0000 |
| 9:127661101:G:GG | acceptor_gain | 1.0000 |
AlphaMissense
3939 scored. Top likely-pathogenic:
| Variant | Protein change | am_pathogenicity |
|---|---|---|
| 9:127653719:T:C | L31P | 1.000 |
| 9:127653728:A:T | D34V | 1.000 |
| 9:127653736:A:C | S37R | 1.000 |
| 9:127653738:C:A | S37R | 1.000 |
| 9:127653738:C:G | S37R | 1.000 |
| 9:127653791:T:A | I55K | 1.000 |
| 9:127658399:G:C | R65T | 1.000 |
| 9:127658400:A:C | R65S | 1.000 |
| 9:127658400:A:T | R65S | 1.000 |
| 9:127660094:T:A | V104D | 1.000 |
| 9:127663313:T:C | C180R | 1.000 |
| 9:127663335:C:A | P187Q | 1.000 |
| 9:127663344:G:C | R190P | 1.000 |
| 9:127665273:C:A | A202D | 1.000 |
| 9:127665294:T:C | L209P | 1.000 |
| 9:127665326:G:A | G220R | 1.000 |
| 9:127665326:G:C | G220R | 1.000 |
| 9:127665326:G:T | G220W | 1.000 |
| 9:127666191:T:C | L230P | 1.000 |
| 9:127666235:C:G | H245D | 1.000 |
| 9:127666269:T:C | L256P | 1.000 |
| 9:127668147:T:A | W288R | 1.000 |
| 9:127668147:T:C | W288R | 1.000 |
| 9:127668160:G:C | R292P | 1.000 |
| 9:127668168:C:G | H295D | 1.000 |
| 9:127668169:A:G | H295R | 1.000 |
| 9:127668170:C:A | H295Q | 1.000 |
| 9:127668170:C:G | H295Q | 1.000 |
| 9:127668172:T:A | I296N | 1.000 |
| 9:127669903:T:A | V303D | 1.000 |
dbSNP variants (sampled 300 via entrez): RS1000048197 (9:127661626 T>C), RS1000052382 (9:127617417 G>A,T), RS1000088574 (9:127693085 A>AT), RS1000109872 (9:127624663 C>T), RS1000112781 (9:127661955 A>C), RS1000211803 (9:127654463 C>T), RS1000356803 (9:127647398 A>T), RS1000370823 (9:127692873 C>A), RS1000414299 (9:127628217 T>C), RS1000541010 (9:127666668 C>T), RS1000560225 (9:127611644 G>A), RS1000590499 (9:127634319 A>G), RS1000610869 (9:127611350 A>G), RS1000618603 (9:127655931 G>A,T), RS1000621676 (9:127674258 GAA>G,GA,GAAA)
Disease associations
OMIM: gene MIM:602926 | disease phenotypes: MIM:108600, MIM:612164, MIM:213000, MIM:209850
GenCC curated gene-disease
| Disease | Classification | Inheritance |
|---|---|---|
| developmental and epileptic encephalopathy, 4 | Definitive | Autosomal recessive |
| autosomal dominant non-syndromic intellectual disability | Supportive | Autosomal dominant |
| genetic developmental and epileptic encephalopathy | Supportive | Autosomal dominant |
| atypical Rett syndrome | Supportive | Autosomal dominant |
| Dravet syndrome | Supportive | Autosomal dominant |
| infantile spasms | Supportive | Autosomal dominant |
| undetermined early-onset epileptic encephalopathy | Supportive | Autosomal dominant |
| intellectual disability | Limited | Autosomal dominant |
| autism spectrum disorder | Limited | Autosomal dominant |
ClinGen Gene-Disease Validity (1)
Expert-panel classifications — Definitive > Strong > Moderate > Limited > Disputed > Refuted.
| Disease | Classification | Inheritance |
|---|---|---|
| genetic developmental and epileptic encephalopathy | Definitive | AD |
Mondo (22): early-infantile DEE (MONDO:0800491), spastic ataxia (MONDO:0017845), intellectual disability (MONDO:0001071), developmental and epileptic encephalopathy (MONDO:0100620), developmental and epileptic encephalopathy, 4 (MONDO:0012812), infantile epilepsy syndrome (MONDO:0020071), prostate cancer (MONDO:0008315), neurodevelopmental disorder (MONDO:0700092), infantile spasms (MONDO:0018097), strabismus (MONDO:0003432), isolated cerebellar hypoplasia/agenesis (MONDO:0008939), autism (MONDO:0005260), neurodegenerative disease (MONDO:0005559), cerebellar ataxia (MONDO:0000437), microcephaly (MONDO:0001149)
Orphanet (15): Early infantile developmental and epileptic encephalopathy (Orphanet:1934), Spastic ataxia (Orphanet:316226), Dravet syndrome (Orphanet:33069), STXBP1-related encephalopathy (Orphanet:599373), Familial prostate cancer (Orphanet:1331), West syndrome (Orphanet:3451), Infantile epileptic spasms syndrome (Orphanet:697160), Isolated cerebellar agenesis (Orphanet:1398), Cerebellar hypoplasia-tapetoretinal degeneration syndrome (Orphanet:2246), Rare ataxia (Orphanet:102002), Multiple congenital anomalies/dysmorphic syndrome (Orphanet:68341), Early myoclonic encephalopathy (Orphanet:1935), NON RARE IN EUROPE: Unexplained intellectual disability (Orphanet:319658), OBSOLETE: Infantile epilepsy syndrome (Orphanet:98258), NON RARE IN EUROPE: Autism (Orphanet:106)
HPO phenotypes
97 total (30 of 97 shown, HPO-id order):
| HPO | Term |
|---|---|
| HP:0000006 | Autosomal dominant inheritance |
| HP:0000028 | Cryptorchidism |
| HP:0000046 | Small scrotum |
| HP:0000054 | Micropenis |
| HP:0000077 | Abnormality of the kidney |
| HP:0000160 | Narrow mouth |
| HP:0000233 | Thin vermilion border |
| HP:0000248 | Brachycephaly |
| HP:0000252 | Microcephaly |
| HP:0000293 | Full cheeks |
| HP:0000311 | Round face |
| HP:0000369 | Low-set ears |
| HP:0000377 | Abnormal pinna morphology |
| HP:0000414 | Bulbous nose |
| HP:0000421 | Epistaxis |
| HP:0000445 | Wide nose |
| HP:0000465 | Webbed neck |
| HP:0000470 | Short neck |
| HP:0000483 | Astigmatism |
| HP:0000486 | Strabismus |
| HP:0000506 | Telecanthus |
| HP:0000708 | Atypical behavior |
| HP:0000729 | Autistic behavior |
| HP:0000750 | Delayed speech and language development |
| HP:0000752 | Hyperactivity |
| HP:0000954 | Single transverse palmar crease |
| HP:0001009 | Telangiectasia |
| HP:0001151 | Impaired horizontal smooth pursuit |
| HP:0001249 | Intellectual disability |
| HP:0001250 | Seizure |
GWAS associations
2 associations (top):
| Study | Trait | p-value |
|---|---|---|
| GCST009200_7 | Whole brain grey matter density | 3.000000e-06 |
| GCST010989_81 | Body size at age 10 | 2.000000e-13 |
EFO canonical traits (2, from GWAS)
| EFO ID | Trait name |
|---|---|
| EFO:0010306 | Grey matter density measurement |
| EFO:0009819 | comparative body size at age 10, self-reported |
MeSH disease descriptors (11)
| Descriptor | Name | Tree numbers |
|---|---|---|
| D001321 | Autistic Disorder | F03.625.164.113.500 |
| D002524 | Cerebellar Ataxia | C10.228.140.252.190; C10.597.350.090.500; C23.888.592.350.090.200 |
| D008607 | Intellectual Disability | C10.597.606.360; C23.888.592.604.646; F01.700.687; F03.625.539 |
| D008831 | Microcephaly | C05.660.207.620; C10.500.507.400.500; C16.131.621.207.620; C16.131.666.507.400.500 |
| D019636 | Neurodegenerative Diseases | C10.574 |
| D065886 | Neurodevelopmental Disorders | F03.625 |
| D011471 | Prostatic Neoplasms | C04.588.945.440.770; C12.100.500.260.750; C12.100.500.565.625; C12.200.294.260.750; C12.200.294.565.625; C12.200.758.409.750; C12.900.619.750 |
| D013285 | Strabismus | C10.292.562.887; C11.590.810 |
| C562568 | Cerebellar Hypoplasia (supp.) | |
| C567404 | Epileptic Encephalopathy, Early Infantile, 4 (supp.) | |
| C564815 | Spastic Ataxia (supp.) |
Drugs & pharmacology
Drug and pharmacology data
Is drug target: yes
ChEMBL targets (1): CHEMBL6067178 (SINGLE PROTEIN)
PharmGKB: 1 entry (VIP=true, CPIC=false)
ChEMBL bioactivities
2 potent at pChembl≥5 of 2 total, top 2 by pChembl (potency: 10 = 0.1 nM, 6 = 1 µM).
| pChembl | Type | Value | Unit | Molecule |
|---|---|---|---|---|
| 8.83 | Kd | 1.474 | nM | CHEMBL5653589 |
| 8.83 | ED50 | 1.474 | nM | CHEMBL5653589 |
PubChem BioAssay actives
1 with measured affinity, of 2 total; 1 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 |
|---|---|---|---|---|
| 4-methyl-3-[(2-methyl-6-pyridin-3-ylpyrazolo[3,4-d]pyrimidin-4-yl)amino]-N-[3-(trifluoromethyl)phenyl]benzamide | 2149521: Binding affinity to human STXBP1 incubated for 45 mins by Kinobead based pull down assay | kd | 0.0015 | uM |
CTD chemical–gene interactions
47 total (human), top 30 by PubMed support.
| Chemical | Actions (top 5) | PubMed papers |
|---|---|---|
| bisphenol A | decreases expression, increases expression | 4 |
| Acetaminophen | increases expression | 4 |
| methylmercuric chloride | increases expression, affects cotreatment | 3 |
| Valproic Acid | increases expression | 3 |
| trichostatin A | affects expression, increases expression | 2 |
| Phenylmercuric Acetate | affects cotreatment, decreases expression | 2 |
| Rotenone | decreases expression, increases expression | 2 |
| bisphenol F | increases expression | 1 |
| triphenyl phosphate | affects expression | 1 |
| decabromobiphenyl ether | decreases expression | 1 |
| tetrahydropalmatine | decreases expression | 1 |
| beta-lapachone | increases expression | 1 |
| arsenite | affects binding, decreases reaction | 1 |
| tris(1,3-dichloro-2-propyl)phosphate | increases expression | 1 |
| sodium arsenite | increases expression | 1 |
| cobaltous chloride | increases expression | 1 |
| benzo(e)pyrene | decreases methylation | 1 |
| aflatoxin B2 | decreases methylation | 1 |
| diallyl trisulfide | increases expression | 1 |
| 2,3,5-(triglutathion-S-yl)hydroquinone | increases ADP-ribosylation | 1 |
| CGP 52608 | affects binding, increases reaction | 1 |
| deguelin | decreases expression | 1 |
| pinostrobin | increases expression | 1 |
| 4-(5-benzo(1,3)dioxol-5-yl-4-pyridin-2-yl-1H-imidazol-2-yl)benzamide | affects cotreatment, increases expression, decreases expression | 1 |
| abrine | decreases expression | 1 |
| 2,2’,4,4’-tetrabromodiphenyl ether | decreases expression | 1 |
| dorsomorphin | affects cotreatment, increases expression, decreases expression | 1 |
| pentabrominated diphenyl ether 100 | increases expression | 1 |
| bisphenol S | increases expression | 1 |
| Sunitinib | increases expression | 1 |
ChEMBL screening assays
1 unique, capped per target: 1 binding
Representative assays (with source publication via chembl_document):
| Assay ID | Type | Description | Source paper |
|---|---|---|---|
| CHEMBL5652563 | Binding | Binding affinity to human STXBP1 incubated for 45 mins by Kinobead based pull down assay | NVP-BHG712: Effects of Regioisomers on the Affinity and Selectivity toward the EPHrin Family. — ChemMedChem |
Cellosaurus cell lines
11 cell lines: 9 induced pluripotent stem cell, 2 cancer cell line
First 10 cell lines (id-ordered, not curated):
| Cellosaurus | Name | Category | Sex |
|---|---|---|---|
| CVCL_A3KE | HPS3179 | Induced pluripotent stem cell | Male |
| CVCL_A3KF | HPS3180 | Induced pluripotent stem cell | Male |
| CVCL_A3KG | HPS3181 | Induced pluripotent stem cell | Male |
| CVCL_A3KH | HPS3182 | Induced pluripotent stem cell | Male |
| CVCL_A3KI | HPS3183 | Induced pluripotent stem cell | Male |
| CVCL_A3KJ | HPS3184 | Induced pluripotent stem cell | Male |
| CVCL_E1GI | Abcam SW480 STXBP1 KO | Cancer cell line | Male |
| CVCL_E4AP | Abcam U-87MG STXBP1 KO | Cancer cell line | Male |
| CVCL_WW34 | IMSUTi001-A | Induced pluripotent stem cell | Female |
| CVCL_WW35 | IMSUTi001-B | Induced pluripotent stem cell | Female |
Clinical trials (associated diseases)
399 trials via MONDO — disease-level, not drug-specific.
| Trial | Phase | Status | Title |
|---|---|---|---|
| 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 |
| NCT00391261 | PHASE4 | COMPLETED | An Open-label Trial of Metformin for Weight Control of Pediatric Patients on Antipsychotic Medications. |
| NCT01028820 | PHASE4 | COMPLETED | FMRI Brain Activation of Aripiprazole Treatment in Autism Spectrum Disorders |
| NCT01333865 | PHASE4 | COMPLETED | A Study of Memantine Hydrochloride (Namenda®) for Cognitive and Behavioral Impairment in Adults With Autism Spectrum Disorders |
| NCT01337700 | PHASE4 | COMPLETED | Milnacipran in Autism and the Functional Locus Coeruleus and Noradrenergic Model of Autism |
| NCT01695200 | PHASE4 | COMPLETED | Omega-3 Fatty Acids in Autism Spectrum Disorders |
| NCT02096952 | PHASE4 | COMPLETED | Methylphenidate ER Liquid Formulation in Adults With ASD and ADHD |
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| NCT04903353 | PHASE4 | COMPLETED | Pragmatic Trial Comparing Weight Gain in Children With Autism Taking Risperidone Versus Aripiprazole |
| NCT05063656 | PHASE4 | COMPLETED | Biomarker-Driven Pharmacological Treatment of Adolescents With Autism Spectrum Disorder With Gabapentin |
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| NCT05916339 | PHASE4 | RECRUITING | AWARE: Management of ADHD in Autism Spectrum Disorder |
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| NCT06853665 | PHASE4 | RECRUITING | The TEAM Study - Treatment Efficacy for Autism/Attention Using Mixed Amphetamine |
| NCT07054697 | PHASE4 | COMPLETED | Pilot-RCT With Individualized Homeopathic Treatment in the Children With Autism Spectrum Disorder |
| NCT07161804 | PHASE4 | COMPLETED | Pilot RCT Using Homeopathic Medicines in ASD |
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| NCT00035997 | PHASE4 | COMPLETED | Open-label Trial on the Effect of I.V. Zoledronic Acid 4 mg on Bone Density in Hormone Sensitive Prostate Cancer Patients With Bone Metastasis |
| NCT00063609 | PHASE4 | COMPLETED | The Effect of Zoledronic Acid on Bone Loss in Prostate Cancer Patients Undergoing Androgen Deprivation Therapy |
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| NCT00185029 | PHASE4 | UNKNOWN | MR-Lymphography and Lymph Node Staging in Prostate Cancer |
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| NCT00219219 | PHASE4 | COMPLETED | Zoledronic Acid in the Prevention of Skeletal-related Events in Hormone Refractory and Hormone-sensitive Prostate Cancer Patients With Bone Metastases |
| NCT00219271 | PHASE4 | COMPLETED | Effect Of Zoledronic Acid On Circulating And Bone Marrow-Residing Prostate Cancer Cells In Patients With Clinically Localized Prostate Cancer |
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| NCT00280098 | PHASE4 | COMPLETED | Docetaxel in the Treatment of Hormone Refractory Prostate Cancer |
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Related Atlas pages
- Associated diseases: intellectual disability, autism spectrum disorder, developmental and epileptic encephalopathy, 4, autosomal dominant non-syndromic intellectual disability, genetic developmental and epileptic encephalopathy, atypical Rett syndrome, Dravet syndrome, infantile spasms, undetermined early-onset epileptic encephalopathy
- Disease cohort memberships (association, not causation — diseases whose associated-gene cohort lists this gene; a subset are also under Associated diseases): atypical Rett syndrome, autism, autism spectrum disorder, autosomal dominant non-syndromic intellectual disability, cerebellar ataxia, developmental and epileptic encephalopathy, developmental and epileptic encephalopathy, 4, early-infantile DEE, genetic developmental and epileptic encephalopathy, infantile epilepsy syndrome, infantile spasms, intellectual disability, isolated cerebellar hypoplasia/agenesis, microcephaly, multiple congenital anomalies/dysmorphic syndrome, neurodegenerative disease, prostate cancer, spastic ataxia, strabismus, undetermined early-onset epileptic encephalopathy