KCNB1

gene
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Also known as Kv2.1

Summary

KCNB1 (potassium voltage-gated channel subfamily B member 1, HGNC:6231) is a protein-coding gene on chromosome 20q13.13, encoding Potassium voltage-gated channel subfamily B member 1 (Q14721). Voltage-gated potassium channel that mediates transmembrane potassium transport in excitable membranes, primarily in the brain, but also in the pancreas and cardiovascular system.

Voltage-gated potassium (Kv) channels represent the most complex class of voltage-gated ion channels from both functional and structural standpoints. Their diverse functions include regulating neurotransmitter release, heart rate, insulin secretion, neuronal excitability, epithelial electrolyte transport, smooth muscle contraction, and cell volume. Four sequence-related potassium channel genes - shaker, shaw, shab, and shal - have been identified in Drosophila, and each has been shown to have human homolog(s). This gene encodes a member of the potassium channel, voltage-gated, shab-related subfamily. This member is a delayed rectifier potassium channel and its activity is modulated by some other family members.

Source: NCBI Gene 3745 — RefSeq curated summary.

At a glance

  • Gene–disease (curated): complex neurodevelopmental disorder (Definitive, ClinGen) — +2 more curated relationships
  • GWAS associations: 11
  • Clinical variants (ClinVar): 870 total — 45 pathogenic, 53 likely-pathogenic
  • Phenotypes (HPO): 62
  • Druggable target: yes
  • Dosage sensitivity (ClinGen): haploinsufficiency no evidence, triplosensitivity no evidence
  • MANE Select transcript: NM_004975

Identifiers

Gene identifiers

FieldValue
HGNC IDHGNC:6231
Approved symbolKCNB1
Namepotassium voltage-gated channel subfamily B member 1
Location20q13.13
Locus typegene with protein product
StatusApproved
AliasesKv2.1
Ensembl geneENSG00000158445
Ensembl biotypeprotein_coding
OMIM600397
Entrez3745

Gene structure

Transcript identifiers

Ensembl transcripts: 9 — 5 protein_coding_CDS_not_defined, 3 protein_coding, 1 nonsense_mediated_decay

ENST00000371741, ENST00000635210, ENST00000635465, ENST00000635809, ENST00000635878, ENST00000636838, ENST00000636950, ENST00000637131, ENST00000637357

RefSeq mRNA: 1 — MANE Select: NM_004975 NM_004975

CCDS: CCDS13418

Canonical transcript exons

ENST00000371741 — 2 exons

ExonStartEnd
ENSE000014559864936387749374992
ENSE000037908944948191449482668

Expression profiles

Bgee: expression breadth ubiquitous, 236 present calls, max score 97.67.

FANTOM5 (CAGE): breadth broad, TPM avg 2.6528 / max 280.7087, expressed in 401 samples.

FANTOM5 promoters (8 alternative TSS)

Promoter IDTPM avgSamples expressed
1877421.8212340
1877410.3491156
1877390.166410
1877400.142356
1877430.062231
1877380.049811
1877370.04038
1877440.02159

Top tissues by expression

287 total, by Bgee expression score (0-100, higher = more expressed):

TissueAnatomy IDExpression scoreQuality
Brodmann (1909) area 23UBERON:001355497.67gold quality
parietal lobeUBERON:000187296.94gold quality
postcentral gyrusUBERON:000258196.90gold quality
middle temporal gyrusUBERON:000277196.65gold quality
superior frontal gyrusUBERON:000266196.03gold quality
entorhinal cortexUBERON:000272895.49gold quality
occipital lobeUBERON:000202194.77gold quality
primary visual cortexUBERON:000243694.48gold quality
endothelial cellCL:000011594.39gold quality
cranial nerve IIUBERON:000094192.70gold quality
CA1 field of hippocampusUBERON:000388192.64gold quality
Brodmann (1909) area 46UBERON:000648392.58gold quality
orbitofrontal cortexUBERON:000416792.40gold quality
Brodmann (1909) area 10UBERON:001354190.02gold quality
frontal cortexUBERON:000187089.46gold quality
dorsolateral prefrontal cortexUBERON:000983489.20gold quality
prefrontal cortexUBERON:000045188.98gold quality
lateral nuclear group of thalamusUBERON:000273688.96gold quality
neocortexUBERON:000195088.30gold quality
frontal poleUBERON:000279588.28gold quality
Brodmann (1909) area 9UBERON:001354088.22gold quality
cerebral cortexUBERON:000095688.04gold quality
dorsal root ganglionUBERON:000004486.97gold quality
lateral globus pallidusUBERON:000247686.60gold quality
right frontal lobeUBERON:000281086.44gold quality
telencephalonUBERON:000189386.15gold quality
temporal lobeUBERON:000187186.04gold quality
trigeminal ganglionUBERON:000167585.92gold quality
ventral tegmental areaUBERON:000269185.35gold quality
lower esophagus muscularis layerUBERON:003583384.74gold quality

Single-cell (SCXA)

Detected in 4 experiment(s), a significant marker in 3.

ExperimentMarker?Max mean expression
E-GEOD-137537yes906.02
E-MTAB-9388yes159.18
E-ANND-3yes7.89
E-MTAB-7316no29.58

Regulation

Is transcription factor: no

Upstream regulators (CollecTRI, top): NFATC3

miRNA regulators (miRDB)

508 targeting KCNB1, top 30 by miRDB confidence (max_score; target_count = how many genes the miRNA targets in total — lower means more specific):

miRNAMax scoreAvg scoremiRNA target_count
HSA-MIR-6867-5P100.0082.213464
HSA-MIR-8485100.0077.574731
HSA-MIR-4795-3P100.0074.624024
HSA-MIR-126-5P100.0072.713180
HSA-MIR-5011-5P100.0083.465820
HSA-MIR-190A-3P100.0080.355520
HSA-MIR-4283100.0066.422097
HSA-MIR-3163100.0077.238605
HSA-MIR-5196-5P100.0067.982761
HSA-MIR-3613-3P100.0076.367965
HSA-MIR-4747-5P100.0067.902681
HSA-MIR-4692100.0067.322066
HSA-MIR-6876-5P100.0067.682126
HSA-MIR-4533100.0069.482758
HSA-MIR-4476100.0068.182030
HSA-MIR-6798-5P100.0065.77699
HSA-MIR-3689D100.0066.141181
HSA-MIR-6851-5P100.0065.631294
HSA-MIR-6873-3P100.0071.422626
HSA-MIR-432-3P100.0067.86705
HSA-MIR-4455100.0065.481587
HSA-MIR-5193100.0067.261744
HSA-MIR-548C-3P99.9974.017587
HSA-MIR-371B-5P99.9975.344759
HSA-MIR-451499.9967.101870
HSA-MIR-118499.9968.191458
HSA-MIR-150-5P99.9966.691976
HSA-MIR-453199.9969.703181
HSA-MIR-453499.9966.581907
HSA-MIR-196A-1-3P99.9972.152772

Functional genomics

ClinGen dosage: haploinsufficiency 0 (no evidence), triplosensitivity 0 (no evidence). ClinGen Gene Dosage Map

Literature-anchored findings (GeneRIF, showing 40)

  • These results indicate that Kv6.3 is a novel member of the voltage-gated K(+) channel which functions as a modulatory subunit of the Kv2.1 channel. (PMID:11852086)
  • characterization of Kv2.1 (PMID:12021261)
  • SNAP-25 protein modulates Kv2.1 voltage-dependent K(+) channels in neuroendocrine islet beta-cells through an interaction with the channel N terminus. (PMID:12403834)
  • exposed residues in the T1 domain of the N terminus, as well as the CTA domain in the C terminus, are important in determining channel activation kinetics and that these N- and C-terminal regions interact (PMID:12560340)
  • direct functional interaction, which is modulated by permeant ions acting at the selectivity filter, between the outer vestibule of the Kv2.1 potassium channel and the voltage sensor. (PMID:15024041)
  • There is a central role for developmentally regulated ductus arteriosus SMC O2-sensitive Kv channels in the functional closure of the DA. (PMID:15353504)
  • formation of heteromeric Kv2.1/Kv9.3 channels of fixed stoichiometry consisting of three Kv2.1 subunits and one Kv9.3 subunit (PMID:15827117)
  • native Kv2.1 polypeptides are more abundantly found in brain (PMID:16008572)
  • Results support a model whereby an outer vestibule lysine interferes with K+ flux through the channel, and that the [K+]-dependent change in orientation of this lysine alters single channel conductance by changing the level of this interference. (PMID:16880266)
  • structural analysis of the human recombinant Kv2.1 channel (PMID:18212012)
  • Proteomic analysis of KV2.1 channel phosphorylation sites determining cell background specific differences in function is reported. (PMID:18690023)
  • Mutation of histidine 105 in the T1 domain of the potassium channel Kv2.1 disrupts heteromerization with Kv6.3 and Kv6.4. (PMID:19074135)
  • SUMOylation can exert a strong inhibitory action on the voltage-dependent K(+) channel Kv2.1 and can regulate cellular excitability in native beta-cells. (PMID:19223394)
  • rs237484 is in proximity to the potassium voltage gate channel gene (KCNB1) and close to the prostaglandin I2 (prostacyclin) synthase gene (PTGIS). (PMID:19265782)
  • KCNB1 may be involved in the development of LV hypertrophy in humans (PMID:19454037)
  • in cells either infected with HCV or harboring an HCV subgenomic replicon, oxidative stress failed to initiate apoptosis via Kv2.1. The HCV NS5A protein mediated this effect by inhibiting oxidative stress-induced p38 MAPK phosphorylation of Kv2.1. (PMID:19717445)
  • Taken together the observations indicate that, as in Shaker, the quinidine-promoted collapse of Shab G(K) occurs during deactivation of the channels, at the end of each activating pulse, with a probability of 0.1 per pulse at 80 mV. (PMID:20547671)
  • Data suggest that unique roles for the clustered Kv2.1 that are independent of K(+) conductance. (PMID:20566856)
  • analysis of binding sites of structurally different antiarrhythmics flecainide and propafenone in the subunit interface of potassium channel Kv2.1 (PMID:20709754)
  • analysis of of kv2.1 channel diffusion observed by single molecule tracking in live cells (PMID:21095721)
  • Functional interactions between residues in the S1, S4, and S5 domains of Kv2.1 in human were studied. (PMID:21455829)
  • Here, we show that tyrosine phosphorylation by Src plays a fundamental role in regulating Kv2.1-mediated K(+) current enhancement. We found that the level of expression of the Kv2.1 protein is increased by Src kinase. (PMID:22106938)
  • Direct interaction between syntaxin 1A and the Kv2.1 C-terminus is required for efficient insulin exocytosis and glucose-stimulated insulin secretion. (PMID:22411134)
  • The results of this study that KCNB1 is a novel mechanism of toxicity in neurodegenerative disease. (PMID:22442077)
  • Somatodendritic Kv2.1 channels in the motor neurons of lower spinal cord significantly decrease correlating with experimental autoimmune encephalomyelitis severity. (PMID:22560931)
  • The KCNB1 rs1051295 TT genotype is associated with decreased insulin sensitivity. (PMID:23431371)
  • In cerebellar granule cells, regulation of Kv2.1 by GDF15 is mediated through the TGFbetaRII-activated Akt/mTOR pathway. (PMID:24597762)
  • This study identified a de novo missense mutation in KCNB1 that encodes the KV 2.1 voltage-gated potassium channel. (PMID:25164438)
  • Glutamate exposure results in a loss of Kv2.1 clusters in neurons. (PMID:25908859)
  • KCNB1 is a strong susceptibility gene for schizophrenia spectrum disorders in humans. (PMID:26240432)
  • KCNE5 subunits may affect Kv2.1 homotetramers and Kv2.1/Kv6.4 heterotetramers in vivo, resulting in more tissue-specific fine-tuning mechanisms. (PMID:26242757)
  • HO-1 expression can strongly influence apoptosis via CO-mediated regulation of Kv2.1 activity (PMID:26303499)
  • The results indicate that KCNB1 is likely associated with metabolic traits that may either predispose or protect from progression to metabolic syndrome. (PMID:26377690)
  • Kv2.1 functional aberrations in humans are associated with developmental delay, infantile generalized seizures, hypotonia, and behavioural problems, and also highlight a critical role for Kv2.1 in regulating neuronal firing in neuronal circuits. (PMID:26477325)
  • inactivation regulation via Ca(2+)/calmodulin does not interfere with the beta subunit’s enzymatic activity as an NADPH-dependent oxidoreductase, thus rendering the Kvb1.1 subunit a multifunctional receptor (PMID:26487174)
  • Epileptic V378A variant in KCNB1 changes ion selectivity, trafficking and expression of Kv2.1 channel. (PMID:26503721)
  • KvS subunits modify the pharmacological response of Kv2 subunits when assembled in heterotetramers and illustrate the potential of KvS subunits to provide unique properties to the heterotetramers, as is the case for 4-AP on Kv2.1/Kv6.4 channels. (PMID:26505474)
  • Perifosine modified the Kv2.1 inactivation gating resulting in a decrease of the current amplitude. (PMID:26922553)
  • KCNB1 is a novel prognostic factor for gliomas that exerts its tumor suppressive function through autophagy induction. (PMID:28144039)
  • the first six N-terminal residues including Lys-3, Lys-4, and Leu-5 are critical for controlling functional regulation, but not trafficking, of BK channels. This membrane-distal region has features of an amphipathic helix that is predicted to control the orientation of the first transmembrane-spanning domain (TM1) of the beta1-subunit. (PMID:28373283)

Cross-species orthologs

3 orthologs

OrganismSymbolGene ID
danio_reriokcnb1ENSDARG00000060095
mus_musculusKcnb1ENSMUSG00000050556
rattus_norvegicusKcnb1ENSRNOG00000046949

Paralogs (31): KCNG1 (ENSG00000026559), KCNQ1 (ENSG00000053918), KCNQ2 (ENSG00000075043), KCND1 (ENSG00000102057), KCNA7 (ENSG00000104848), KCNA1 (ENSG00000111262), KCNC4 (ENSG00000116396), KCNQ4 (ENSG00000117013), KCNS1 (ENSG00000124134), KCNC1 (ENSG00000129159), KCNA5 (ENSG00000130037), KCNC3 (ENSG00000131398), KCNA10 (ENSG00000143105), KCNA6 (ENSG00000151079), KCNS2 (ENSG00000156486), KCNF1 (ENSG00000162975), KCNV1 (ENSG00000164794), KCNC2 (ENSG00000166006), KCNV2 (ENSG00000168263), KCNG4 (ENSG00000168418), KCNS3 (ENSG00000170745), KCNG3 (ENSG00000171126), KCND3 (ENSG00000171385), KCNA3 (ENSG00000177272), KCNA2 (ENSG00000177301), KCNG2 (ENSG00000178342), KCNA4 (ENSG00000182255), KCNB2 (ENSG00000182674), KCNQ3 (ENSG00000184156), KCND2 (ENSG00000184408), KCNQ5 (ENSG00000185760)

Protein

Protein identifiers

Potassium voltage-gated channel subfamily B member 1Q14721 (reviewed: Q14721)

Alternative names: Delayed rectifier potassium channel 1, Voltage-gated potassium channel subunit Kv2.1

All UniProt accessions (3): Q14721, A0A1B0GTM8, A0A1B0GU02

UniProt curated annotations — full annotation on UniProt →

Function. Voltage-gated potassium channel that mediates transmembrane potassium transport in excitable membranes, primarily in the brain, but also in the pancreas and cardiovascular system. Contributes to the regulation of the action potential (AP) repolarization, duration and frequency of repetitive AP firing in neurons, muscle cells and endocrine cells and plays a role in homeostatic attenuation of electrical excitability throughout the brain. Plays also a role in the regulation of exocytosis independently of its electrical function. Forms tetrameric potassium-selective channels through which potassium ions pass in accordance with their electrochemical gradient. The channel alternates between opened and closed conformations in response to the voltage difference across the membrane. Homotetrameric channels mediate a delayed-rectifier voltage-dependent outward potassium current that display rapid activation and slow inactivation in response to membrane depolarization. Can form functional homotetrameric and heterotetrameric channels that contain variable proportions of KCNB2; channel properties depend on the type of alpha subunits that are part of the channel. Can also form functional heterotetrameric channels with other alpha subunits that are non-conducting when expressed alone, such as KCNF1, KCNG1, KCNG3, KCNG4, KCNH1, KCNH2, KCNS1, KCNS2, KCNS3 and KCNV1, creating a functionally diverse range of channel complexes. Heterotetrameric channel activity formed with KCNS3 show increased current amplitude with the threshold for action potential activation shifted towards more negative values in hypoxic-treated pulmonary artery smooth muscle cells. Channel properties are also modulated by cytoplasmic ancillary beta subunits such as AMIGO1, KCNE1, KCNE2 and KCNE3, slowing activation and inactivation rate of the delayed rectifier potassium channels. In vivo, membranes probably contain a mixture of heteromeric potassium channel complexes, making it difficult to assign currents observed in intact tissues to any particular potassium channel family member. Major contributor to the slowly inactivating delayed-rectifier voltage-gated potassium current in neurons of the central nervous system, sympathetic ganglion neurons, neuroendocrine cells, pancreatic beta cells, cardiomyocytes and smooth muscle cells. Mediates the major part of the somatodendritic delayed-rectifier potassium current in hippocampal and cortical pyramidal neurons and sympathetic superior cervical ganglion (CGC) neurons that acts to slow down periods of firing, especially during high frequency stimulation. Plays a role in the induction of long-term potentiation (LTP) of neuron excitability in the CA3 layer of the hippocampus. Contributes to the regulation of glucose-induced action potential amplitude and duration in pancreatic beta cells, hence limiting calcium influx and insulin secretion. Plays a role in the regulation of resting membrane potential and contraction in hypoxia-treated pulmonary artery smooth muscle cells. May contribute to the regulation of the duration of both the action potential of cardiomyocytes and the heart ventricular repolarization QT interval. Contributes to the pronounced pro-apoptotic potassium current surge during neuronal apoptotic cell death in response to oxidative injury. May confer neuroprotection in response to hypoxia/ischemic insults by suppressing pyramidal neurons hyperexcitability in hippocampal and cortical regions. Promotes trafficking of KCNG3, KCNH1 and KCNH2 to the cell surface membrane, presumably by forming heterotetrameric channels with these subunits. Plays a role in the calcium-dependent recruitment and release of fusion-competent vesicles from the soma of neurons, neuroendocrine and glucose-induced pancreatic beta cells by binding key components of the fusion machinery in a pore-independent manner.

Subunit / interactions. Homotetramer or heterotetramer with KCNB2. Heterotetramer with non-conducting channel-forming alpha subunits such as KCNF1, KCNG1, KCNG3, KCNG4, KCNH1, KCNH2, KCNS1, KCNS2, KCNS3 and KCNV1. Channel activity is regulated by association with ancillary beta subunits such as AMIGO1, KCNE1, KCNE2 and KCNE3. Interacts with KCNV2. Self-associates (via N-terminus and C-terminus); self-association is required to regulate trafficking, gating and C-terminal phosphorylation-dependent modulation of the channel. Interacts (via C-terminus) with STX1A (via C-terminus); this decreases the rate of channel activation and increases the rate of channel inactivation in pancreatic beta cells, also induces neuronal apoptosis in response to oxidative injury as well as pore-independent enhancement of exocytosis in neuroendocrine cells, chromaffin cells, pancreatic beta cells and from the soma of dorsal root ganglia (DRG) neurons. Interacts (via N-terminus) with SNAP25; this decreases the rate of channel inactivation in pancreatic beta cells and also increases interaction during neuronal apoptosis in a N-methyl-D-aspartate receptor (NMDAR)-dependent manner. Interacts (via N-terminus and C-terminus) with VAMP2 (via N-terminus); stimulates channel inactivation rate. Interacts with CREB1; this promotes channel acetylation in response to stimulation of incretin hormones. Interacts (via N-terminus and C-terminus) with MYL12B. Interacts (via N-terminus) with PIAS3; this increases the number of functional channels at the cell surface. Interacts with SUMO1. Interacts (via phosphorylated form) with PTPRE; this reduces phosphorylation and channel activity in heterologous cells. Interacts (via phosphorylated FFAT motif) with VAPA and VAPB.

Subcellular location. Cell membrane. Perikaryon. Cell projection. Axon. Dendrite. Membrane. Postsynaptic cell membrane. Synapse. Synaptosome. Lateral cell membrane. Sarcolemma.

Tissue specificity. Expressed in neocortical pyramidal cells. Expressed in pancreatic beta cells (at protein level). Expressed in brain, heart, lung, liver, colon, kidney and adrenal gland. Expressed in the cortex, amygdala, cerebellum, pons, thalamus, hypothalamus, hippocampus and substantia nigra.

Post-translational modifications. Phosphorylated. Differential C-terminal phosphorylation on a subset of serines allows graded activity-dependent regulation of channel gating in hippocampal neurons. Ser-607 and Tyr-128 are significant sites of voltage-gated regulation through phosphorylation/dephosphorylation activities. Tyr-128 can be phosphorylated by Src and dephosphorylated by cytoplasmic form of the phosphatase PTPRE. CDK5-induced Ser-607 phosphorylation increases in response to acute blockade of neuronal activity. Phosphorylated on Tyr-128 by Src and on Ser-805 by MAPK14/P38MAPK; phosphorylations are necessary and sufficient for an increase in plasma membrane insertion, apoptotic potassium current surge and completion of the neuronal cell death program. Phosphorylated on Ser-520, Ser-607, Ser-656 and Ser-805 by CDK5; phosphorylation is necessary for KCNB1 channel clustering formation. The Ser-607 phosphorylation state differs between KCNB1-containing clusters on the proximal and distal portions of the axon initial segment (AIS). Highly phosphorylated on serine residues in the C-terminal cytoplasmic tail in resting neurons. Phosphorylated in pancreatic beta cells in response to incretin hormones stimulation in a PKA- and RPS6KA5/MSK1-dependent signaling pathway, promoting beta cell survival. Phosphorylation on Ser-567 is reduced during postnatal development with low levels at P2 and P5; levels then increase to reach adult levels by P14. Phosphorylation on Ser-457, Ser-541, Ser-567, Ser-607, Ser-656 and Ser-720 as well as the N-terminal Ser-15 are sensitive to calcineurin-mediated dephosphorylation contributing to the modulation of the voltage-dependent gating properties. Dephosphorylation by phosphatase PTPRE confers neuroprotection by its inhibitory influence on the neuronal apoptotic potassium current surge in a Zn(2+)-dependent manner. Dephosphorylated at Ser-607 by protein phosphatase PPP1CA. Hypoxia-, seizure- or glutamate-induced neuronal activity promote calcium/calcineurin-dependent dephosphorylation resulting in a loss of KCNB1-containing clustering and enhanced channel activity. In response to brain ischemia, Ser-567 and Ser-607 are strongly dephosphorylated while Ser-457 and Ser-720 are less dephosphorylated. In response to brain seizures, phosphorylation levels on Ser-567 and Ser-607 are greatly reduced. Phosphorylated/dephosphorylated by Src or FYN tyrosine-protein kinases and tyrosine phosphatase PTPRE in primary Schwann cells and sciatic nerve tissue. Phosphorylation at Ser-593 of the FFAT motif activates interaction with MOSPD2, VAPA and VAPB. Acetylated. Acetylation occurs in pancreatic beta cells in response to stimulation by incretin hormones in a histone acetyltransferase (HAT)/histone deacetylase (HDAC)-dependent signaling pathway, promoting beta cell survival. Sumoylated on Lys-474, preferentially with SUMO1; sumoylation induces a positive shift in the voltage-dependence of activation and inhibits channel activity. Sumoylation increases the frequency of repetitive action potential firing at the cell surface of hippocampal neurons and decreases its frequency in pancreatic beta cells. Desumoylated by SENP1.

Disease relevance. Developmental and epileptic encephalopathy 26 (DEE26) [MIM:616056] A form of epileptic encephalopathy, a heterogeneous group of severe early-onset epilepsies characterized by refractory seizures, neurodevelopmental impairment, and poor prognosis. Development is normal prior to seizure onset, after which cognitive and motor delays become apparent. DEE26 patients manifest multiple types of seizures, delayed psychomotor development, poor or absent speech, hypotonia, hypsarrhythmia. The disease is caused by variants affecting the gene represented in this entry.

Activity regulation. Inhibited by 12.7 nM stromatoxin 1 (ScTx1), a spider venom toxin of the tarantula S.calceata. Inhibited by 42 nM hanatoxin 1 (HaTx1), a spider venom toxin of the tarantula G.spatulata. Modestly sensitive to millimolar levels of tetraethylammonium (TEA). Modestly sensitive to millimolar levels of 4-aminopyridine (4-AP). Completely insensitive to toxins such as dendrotoxin (DTX) and charybdotoxin (CTX).

Domain organisation. The transmembrane segment S4 functions as a voltage-sensor and is characterized by a series of positively charged amino acids at every third position. Channel opening and closing is effected by a conformation change that affects the position and orientation of the voltage-sensor paddle formed by S3 and S4 within the membrane. A transmembrane electric field that is positive inside would push the positively charged S4 segment outwards, thereby opening the pore, while a field that is negative inside would pull the S4 segment inwards and close the pore. Changes in the position and orientation of S4 are then transmitted to the activation gate formed by the inner helix bundle via the S4-S5 linker region. The N-terminal and C-terminal cytoplasmic regions mediate homooligomerization; self-association is required to regulate trafficking, gating and C-terminal phosphorylation-dependent modulation of the channel. The N-terminal cytoplasmic region is important for interaction with other channel-forming alpha subunits and with ancillary beta subunits. The C-terminus is necessary and sufficient for the restricted localization to, and clustering within, both in soma and proximal portions of dendrite of neurons and in lateral membrane of non-neuronal polarized cells. The C-terminus is both necessary and sufficient as a mediator of cholinergic and calcium-stimulated modulation of channel cell membrane clustering localization and activity in hippocampal neurons. The FFAT motif is involved in the interaction with VAPA and VAPB and its phosphorylation regulates these interactions.

Similarity. Belongs to the potassium channel family. B (Shab) (TC 1.A.1.2) subfamily. Kv2.1/KCNB1 sub-subfamily.

RefSeq proteins (1): NP_004966* (*=MANE)

Domains & families (InterPro)

IDNameType
IPR000210BTB/POZ_domDomain
IPR003131T1-type_BTBDomain
IPR003968K_chnl_volt-dep_KvFamily
IPR003973K_chnl_volt-dep_Kv2Family
IPR004350K_chnl_volt-dep_Kv2.1Family
IPR005821Ion_trans_domDomain
IPR011333SKP1/BTB/POZ_sfHomologous_superfamily
IPR027359Volt_channel_dom_sfHomologous_superfamily
IPR028325VG_K_chnlFamily

Pfam: PF00520, PF02214, PF03521

Catalyzed reactions (Rhea), 1 shown:

  • K(+)(in) = K(+)(out) (RHEA:29463)

UniProt features (95 total): sequence variant 28, modified residue 19, topological domain 8, region of interest 7, helix 7, transmembrane region 6, mutagenesis site 5, compositionally biased region 4, strand 4, intramembrane region 2, short sequence motif 2, chain 1, cross-link 1, turn 1

Structure

Experimental structures (PDB)

6 structures.

PDBMethodResolution (Å)
7RE5X-RAY DIFFRACTION2.5
7SPDX-RAY DIFFRACTION2.7
9O10ELECTRON MICROSCOPY3
9O11ELECTRON MICROSCOPY3.3
9O12ELECTRON MICROSCOPY4.3
9O13ELECTRON MICROSCOPY5.8

Predicted structure (AlphaFold)

ModelpLDDTFraction very-high
AF-Q14721-F162.900.29

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 (20): 15, 128, 444, 457, 484, 496, 503, 519, 520, 541, 567, 590, 593, 607, 656, 720, 772, 800, 805, 474

Mutagenesis-validated functional residues (5):

PositionPhenotype
71no effect on channel activity.
74reduces interaction with kcng1 and self-interaction and impairs plasma membrane subcellular localization, homotetrameriz
75reduces interaction with kcng1 and self-interaction and impairs plasma membrane subcellular localization, homotetrameriz
79increases channel activity.
105reduces channel activity. inhibits interaction with kcng4. impairs hetetrotetramerization with kcng1, kcng3 or kcng4. do

Function

Pathways and Gene Ontology

Reactome pathways

7 pathways

IDPathway
R-HSA-1296072Voltage gated Potassium channels
R-HSA-381676Glucagon-like Peptide-1 (GLP1) regulates insulin secretion
R-HSA-112316Neuronal System
R-HSA-1296071Potassium Channels
R-HSA-1430728Metabolism
R-HSA-163685Integration of energy metabolism
R-HSA-422356Regulation of insulin secretion

MSigDB gene sets: 517 (showing top): GOBP_POTASSIUM_ION_TRANSPORT, RNGTGGGC_UNKNOWN, GOBP_RESPONSE_TO_NITROGEN_COMPOUND, GOBP_POSITIVE_REGULATION_OF_CALCIUM_ION_DEPENDENT_EXOCYTOSIS, REACTOME_VOLTAGE_GATED_POTASSIUM_CHANNELS, GOBP_RESPONSE_TO_ACID_CHEMICAL, REACTOME_POTASSIUM_CHANNELS, GOBP_NEURON_MATURATION, GOBP_INSULIN_SECRETION, GOBP_CELLULAR_RESPONSE_TO_CARBOHYDRATE_STIMULUS, GOBP_PROTEIN_TARGETING, GOBP_REGULATION_OF_EXOCYTOSIS, GOBP_REGULATION_OF_HORMONE_LEVELS, GOCC_CELL_SURFACE, GOBP_NEGATIVE_REGULATION_OF_PEPTIDE_SECRETION

GO Biological Process (27): action potential (GO:0001508), obsolete vesicle docking involved in exocytosis (GO:0006904), glutamate receptor signaling pathway (GO:0007215), positive regulation of norepinephrine secretion (GO:0010701), cellular response to nutrient levels (GO:0031669), positive regulation of catecholamine secretion (GO:0033605), glucose homeostasis (GO:0042593), clustering of voltage-gated potassium channels (GO:0045163), positive regulation of calcium ion-dependent exocytosis (GO:0045956), negative regulation of insulin secretion (GO:0046676), response to axon injury (GO:0048678), protein homooligomerization (GO:0051260), cellular response to calcium ion (GO:0071277), cellular response to glucose stimulus (GO:0071333), potassium ion transmembrane transport (GO:0071805), protein localization to plasma membrane (GO:0072659), positive regulation of protein targeting to membrane (GO:0090314), potassium ion export across plasma membrane (GO:0097623), regulation of action potential (GO:0098900), positive regulation of long-term synaptic depression (GO:1900454), response to L-glutamate (GO:1902065), regulation of motor neuron apoptotic process (GO:2000671), monoatomic ion transport (GO:0006811), potassium ion transport (GO:0006813), exocytosis (GO:0006887), monoatomic ion transmembrane transport (GO:0034220), transmembrane transport (GO:0055085)

GO Molecular Function (10): SNARE binding (GO:0000149), voltage-gated potassium channel activity (GO:0005249), delayed rectifier potassium channel activity (GO:0005251), outward rectifier potassium channel activity (GO:0015271), potassium channel regulator activity (GO:0015459), transmembrane transporter binding (GO:0044325), protein heterodimerization activity (GO:0046982), monoatomic ion channel activity (GO:0005216), potassium channel activity (GO:0005267), protein binding (GO:0005515)

GO Cellular Component (22): plasma membrane (GO:0005886), voltage-gated potassium channel complex (GO:0008076), cell surface (GO:0009986), apical plasma membrane (GO:0016324), lateral plasma membrane (GO:0016328), axon (GO:0030424), dendrite (GO:0030425), dendrite membrane (GO:0032590), neuronal cell body membrane (GO:0032809), sarcolemma (GO:0042383), perikaryon (GO:0043204), postsynaptic membrane (GO:0045211), perinuclear region of cytoplasm (GO:0048471), cholinergic synapse (GO:0098981), postsynaptic specialization membrane (GO:0099634), proximal dendrite (GO:1990635), membrane (GO:0016020), monoatomic ion channel complex (GO:0034702), cell projection (GO:0042995), neuron projection (GO:0043005), neuronal cell body (GO:0043025), synapse (GO:0045202)

Reactome top-level categories

Rollup of top-5 pathways:

CategoryPathways
Potassium Channels1
Regulation of insulin secretion1
Neuronal System1
Metabolism1
Integration of energy metabolism1

GO top-level categories

Rollup of top GO terms by namespace:

CategoryTerms
cellular anatomical structure6
regulation of membrane potential2
protein binding2
potassium channel activity2
voltage-gated potassium channel activity2
plasma membrane2
neuron projection2
dendrite2
neuronal cell body2
synaptic membrane2
cell surface receptor signaling pathway1
glutamate receptor activity1
regulation of norepinephrine secretion1
positive regulation of catecholamine secretion1
norepinephrine secretion1
response to nutrient levels1
cellular response to stimulus1
catecholamine secretion1
regulation of catecholamine secretion1
positive regulation of amine transport1
positive regulation of secretion by cell1
carbohydrate homeostasis1
neuronal ion channel clustering1
calcium-ion regulated exocytosis1
regulation of calcium ion-dependent exocytosis1
positive regulation of regulated secretory pathway1
insulin secretion1
negative regulation of protein secretion1
regulation of insulin secretion1
negative regulation of peptide hormone secretion1
response to wounding1
protein complex oligomerization1
response to calcium ion1
cellular response to metal ion1
intracellular glucose homeostasis1
response to glucose1
cellular response to hexose stimulus1
potassium ion transport1
monoatomic cation transmembrane transport1
protein localization to membrane1

Protein interactions and networks

STRING

2710 interactions, top by confidence (×1000):

Protein AProtein BPartner UniProtScore
KCNB1STX1AQ16623962
KCNB1KCNS3Q9BQ31950
KCNB1KCNA2P16389903
KCNB1KCNG4Q8TDN1860
KCNB1VAPAQ9P0L0847
KCNB1VAPBO95292713
KCNB1KCNH2Q12809683
KCNB1SNAP25P13795673
KCNB1SLC6A3Q01959670
KCNB1KCNE2Q9Y6J6669
KCNB1KCNAB1Q14722664
KCNB1KCNF1Q9H3M0627
KCNB1SCN8AQ9UQD0627
KCNB1KCNS1Q96KK3615
KCNB1VAMP2P19065613

IntAct

114 interactions, top by confidence:

ABTypeScore
KCNB1ARHGEF11psi-mi:“MI:0407”(direct interaction)0.440
KCNB1DLG3psi-mi:“MI:0407”(direct interaction)0.440
KCNB1PICK1psi-mi:“MI:0407”(direct interaction)0.440
TAX1BP3KCNB1psi-mi:“MI:0407”(direct interaction)0.440
KCNB1DLG4psi-mi:“MI:0407”(direct interaction)0.440
PTPN3KCNB1psi-mi:“MI:0407”(direct interaction)0.440
KCNB1DLG5psi-mi:“MI:0407”(direct interaction)0.440
KCNB1TIAM2psi-mi:“MI:0407”(direct interaction)0.440
KCNB1NHERF4psi-mi:“MI:0407”(direct interaction)0.440
KCNB1DLG1psi-mi:“MI:0407”(direct interaction)0.440
KCNB1RAPGEF6psi-mi:“MI:0407”(direct interaction)0.440
KCNB1APBA3psi-mi:“MI:0407”(direct interaction)0.440
KCNB1MPP2psi-mi:“MI:0407”(direct interaction)0.440
KCNB1HTRA4psi-mi:“MI:0407”(direct interaction)0.440
KCNB1PDZRN4psi-mi:“MI:0407”(direct interaction)0.440
GRIP2KCNB1psi-mi:“MI:0407”(direct interaction)0.440
KCNB1PDZK1psi-mi:“MI:0407”(direct interaction)0.440
KCNB1LIN7Cpsi-mi:“MI:0407”(direct interaction)0.440
KCNB1SNX27psi-mi:“MI:0407”(direct interaction)0.440
KCNB1LDB3psi-mi:“MI:0407”(direct interaction)0.440
KCNB1MAGI3psi-mi:“MI:0407”(direct interaction)0.440
KCNB1PTPN13psi-mi:“MI:0407”(direct interaction)0.440
KCNB1LNX1psi-mi:“MI:0407”(direct interaction)0.440
KCNB1SNTG2psi-mi:“MI:0407”(direct interaction)0.440
KCNB1WHRNpsi-mi:“MI:0407”(direct interaction)0.440
KCNB1MPP7psi-mi:“MI:0407”(direct interaction)0.440

BioGRID (53): CALM1 (Reconstituted Complex), KCNB1 (FRET), KCNB1 (FRET), KCNB1 (Reconstituted Complex), STX1A (Reconstituted Complex), VAPA (FRET), VAPB (FRET), KCNB1 (Affinity Capture-Western), KCNB1 (Reconstituted Complex), KCNB1 (Two-hybrid), KCNG3 (Two-hybrid), KCNH1 (Two-hybrid), KCNV2 (Two-hybrid), KCNG3 (Affinity Capture-Western), KCNH1 (Affinity Capture-Western)

ESM2 similar proteins: A0JPH4, A1DWM3, A4QN56, A6H8H5, B0UYT5, B3MG58, B3NSE1, B4GAP7, B4KR05, B4LPX5, B4QBN2, O18868, O60741, P08911, P11483, P15387, P20309, P41984, P59995, Q03717, Q0P5V9, Q14721, Q1LUC3, Q1LUQ4, Q291H8, Q4V887, Q4ZHA6, Q5BKX6, Q5VW38, Q62897, Q63099, Q63881, Q6ZSS7, Q8C145, Q8CBH5, Q8HYZ1, Q91WD0, Q92953, Q95167, Q95L11

Diamond homologs: A2BDX4, A4K2M4, A4K2N8, A4K2P6, A4K2Q6, A4K2R3, A4K2S2, A4K2T1, A4K2V2, A4K2W6, A4K2X4, A4K2Y2, A6H8H5, D4AD53, D4ADX7, G5EFC3, O18868, O35173, O35174, O73606, O88758, O88759, P10499, P15384, P15385, P15387, P15388, P16388, P16390, P17970, P17971, P17972, P22001, P22459, P22739, P25122, P48547, P59053, P59994, P59995

SIGNOR signaling

5 interactions.

AEffectBMechanism
PTPRAdown-regulatesKCNB1dephosphorylation
SRCup-regulatesKCNB1phosphorylation
PTPRE“down-regulates activity”KCNB1dephosphorylation
KCNB1“up-regulates quantity”VAPBrelocalization
KCNB1“up-regulates quantity”VAPArelocalization

Enriched among interaction partners

Reactome pathways and GO biological processes over-represented among this gene’s 76 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:

PathwayPartnersFoldFDR
Assembly and cell surface presentation of NMDA receptors841.4×2e-09
Neurexins and neuroligins832.1×1e-08
Protein-protein interactions at synapses527.1×5e-05
RHOB GTPase cycle515.8×3e-04
RHOC GTPase cycle514.9×3e-04
RHOA GTPase cycle69.1×6e-04
RAC1 GTPase cycle56.2×8e-03
RHO GTPase cycle56.1×8e-03

GO biological processes:

GO termPartnersFoldFDR
establishment or maintenance of epithelial cell apical/basal polarity1080.7×9e-15
receptor clustering652.0×2e-07
regulation of postsynaptic membrane neurotransmitter receptor levels641.3×7e-07
protein-containing complex assembly812.7×2e-05
cell-cell adhesion811.3×4e-05
chemical synaptic transmission66.4×9e-03

Disease & clinical

Clinical variants and AI predictions

ClinVar

870 variants total. Per-class counts are floors (≥ shown; pagination cap):

ClassificationCount (floor)
Pathogenic45
Likely pathogenic53
Uncertain significance316
Likely benign285
Benign67

Top pathogenic / likely-pathogenic (30)

Variant IDHGVSClassification
1031489NM_004975.4(KCNB1):c.1136G>T (p.Gly379Val)Pathogenic
1052355NM_004975.4(KCNB1):c.1249T>C (p.Ser417Pro)Pathogenic
1068345NM_004975.4(KCNB1):c.961G>A (p.Gly321Ser)Pathogenic
1184135NM_004975.4(KCNB1):c.1550C>A (p.Ser517Ter)Pathogenic
1198561NM_004975.4(KCNB1):c.1055_1066del (p.Ala352_Asp355del)Pathogenic
1334708NM_004975.4(KCNB1):c.1503dup (p.Lys502Ter)Pathogenic
1427157NM_004975.4(KCNB1):c.1107G>A (p.Trp369Ter)Pathogenic
1428239NM_004975.4(KCNB1):c.1229C>T (p.Pro410Leu)Pathogenic
1446788NM_004975.4(KCNB1):c.959T>C (p.Leu320Pro)Pathogenic
1452081NM_004975.4(KCNB1):c.1169G>A (p.Gly390Glu)Pathogenic
1457665NM_004975.4(KCNB1):c.629C>A (p.Thr210Lys)Pathogenic
156533NM_004975.4(KCNB1):c.1041C>A (p.Ser347Arg)Pathogenic
156534NM_004975.4(KCNB1):c.1121C>T (p.Thr374Ile)Pathogenic
156535NM_004975.4(KCNB1):c.1135G>A (p.Gly379Arg)Pathogenic
2504540NM_004975.4(KCNB1):c.1232T>A (p.Ile411Asn)Pathogenic
2575245NM_004975.4(KCNB1):c.1141G>A (p.Gly381Arg)Pathogenic
2709811NM_004975.4(KCNB1):c.1051T>G (p.Phe351Val)Pathogenic
280403NM_004975.4(KCNB1):c.820dup (p.Tyr274fs)Pathogenic
280560NM_004975.4(KCNB1):c.1108T>C (p.Trp370Arg)Pathogenic
2811308NM_004975.4(KCNB1):c.988G>C (p.Glu330Gln)Pathogenic
3062072NM_004975.4(KCNB1):c.682C>T (p.Gln228Ter)Pathogenic
3897492NM_004975.4(KCNB1):c.1124T>C (p.Met375Thr)Pathogenic
449693NM_004975.4(KCNB1):c.916C>T (p.Arg306Cys)Pathogenic
451018NM_004975.4(KCNB1):c.1144G>C (p.Asp382His)Pathogenic
4537900NM_004975.4(KCNB1):c.1223C>T (p.Pro408Leu)Pathogenic
4813524NM_004975.4(KCNB1):c.975GAG[1] (p.Arg326del)Pathogenic
503951NM_004975.4(KCNB1):c.661delinsAT (p.Gly221fs)Pathogenic
503975NM_004975.4(KCNB1):c.1314_1315del (p.Arg438fs)Pathogenic
633620NM_004975.4(KCNB1):c.629C>G (p.Thr210Arg)Pathogenic
633621NM_004975.4(KCNB1):c.857del (p.Val286fs)Pathogenic

SpliceAI

481 predictions. Top by Δscore:

VariantEffectΔscore
20:49374989:GGATC:Gacceptor_loss1.0000
20:49374990:GATC:Gacceptor_loss1.0000
20:49374991:ATCTG:Aacceptor_loss1.0000
20:49374992:TCTG:Tacceptor_loss1.0000
20:49374993:C:CCacceptor_gain1.0000
20:49374993:C:CGacceptor_loss1.0000
20:49374994:T:Gacceptor_loss1.0000
20:49481909:CTCA:Cdonor_loss1.0000
20:49481910:TCA:Tdonor_loss1.0000
20:49481911:CA:Cdonor_loss1.0000
20:49481912:A:ACdonor_gain1.0000
20:49481913:C:CCdonor_gain1.0000
20:49481913:C:CGdonor_loss1.0000
20:49374988:AGGAT:Aacceptor_gain0.9900
20:49374989:GGAT:Gacceptor_gain0.9900
20:49374990:GAT:Gacceptor_gain0.9900
20:49374991:AT:Aacceptor_gain0.9900
20:49374995:G:Cacceptor_gain0.9900
20:49481912:AC:Adonor_gain0.9900
20:49481913:CC:Cdonor_gain0.9900
20:49481913:CCT:Cdonor_gain0.9900
20:49481913:CCTT:Cdonor_gain0.9800
20:49481913:CCTTG:Cdonor_gain0.9800
20:49374995:G:GCacceptor_gain0.9500
20:49432661:T:Adonor_gain0.9400
20:49432662:C:CAdonor_gain0.9300
20:49476360:A:ACdonor_gain0.9100
20:49476361:C:CCdonor_gain0.9100
20:49368955:G:Cdonor_gain0.8800
20:49368957:G:Tdonor_gain0.8600

AlphaMissense

5708 scored. Top likely-pathogenic:

VariantProtein changeam_pathogenicity
20:49374257:C:GA435P1.000
20:49374262:C:GR433P1.000
20:49374265:C:GR432P1.000
20:49374275:C:GA429P1.000
20:49374292:T:GQ423P1.000
20:49374303:G:CF419L1.000
20:49374303:G:TF419L1.000
20:49374305:A:GF419L1.000
20:49374311:A:GS417P1.000
20:49374312:G:CF416L1.000
20:49374312:G:TF416L1.000
20:49374313:A:CF416C1.000
20:49374313:A:GF416S1.000
20:49374314:A:GF416L1.000
20:49374314:A:TF416I1.000
20:49374322:A:TV413D1.000
20:49374325:A:CI412S1.000
20:49374325:A:TI412N1.000
20:49374331:G:CP410R1.000
20:49374334:A:TI409N1.000
20:49374337:G:CP408R1.000
20:49374337:G:TP408H1.000
20:49374338:G:AP408S1.000
20:49374340:A:CL407R1.000
20:49374340:A:GL407P1.000
20:49374340:A:TL407H1.000
20:49374343:G:TA406D1.000
20:49374344:C:GA406P1.000
20:49374352:A:CL403R1.000
20:49374352:A:GL403P1.000

dbSNP variants (sampled 300 via entrez): RS1000011792 (20:49451182 A>G), RS1000028512 (20:49444211 C>T), RS1000051235 (20:49437553 G>A), RS1000092880 (20:49416928 G>T), RS1000094471 (20:49423119 A>T), RS1000121298 (20:49462346 C>T), RS1000126970 (20:49397887 C>T), RS1000151954 (20:49376307 G>A), RS1000153875 (20:49462604 T>C), RS1000167357 (20:49457568 T>G), RS1000168090 (20:49385137 A>C), RS1000183460 (20:49381699 C>T), RS1000184928 (20:49414610 G>A), RS1000214437 (20:49381467 C>A), RS1000215113 (20:49420410 C>A,T)

Disease associations

OMIM: gene MIM:600397 | disease phenotypes: MIM:616056

GenCC curated gene-disease

DiseaseClassificationInheritance
developmental and epileptic encephalopathy, 26DefinitiveAutosomal dominant
complex neurodevelopmental disorderDefinitiveAutosomal dominant
undetermined early-onset epileptic encephalopathySupportiveAutosomal dominant

ClinGen Gene-Disease Validity (1)

Expert-panel classifications — Definitive > Strong > Moderate > Limited > Disputed > Refuted.

DiseaseClassificationInheritance
complex neurodevelopmental disorderDefinitiveAD

Mondo (6): developmental and epileptic encephalopathy, 26 (MONDO:0014477), intellectual disability (MONDO:0001071), epilepsy (MONDO:0005027), developmental and epileptic encephalopathy (MONDO:0100620), complex neurodevelopmental disorder (MONDO:0100038), undetermined early-onset epileptic encephalopathy (MONDO:0018614)

Orphanet (3): Non-specific early-onset epileptic encephalopathy (Orphanet:442835), Rare genetic intellectual disability (Orphanet:183757), NON RARE IN EUROPE: Unexplained intellectual disability (Orphanet:319658)

HPO phenotypes

62 total (30 of 62 shown, HPO-id order):

HPOTerm
HP:0000006Autosomal dominant inheritance
HP:0000252Microcephaly
HP:0000348High forehead
HP:0000494Downslanted palpebral fissures
HP:0000504Abnormality of vision
HP:0000508Ptosis
HP:0000546Retinal degeneration
HP:0000639Nystagmus
HP:0000648Optic atrophy
HP:0000668Hypodontia
HP:0000708Atypical behavior
HP:0000717Autism
HP:0000750Delayed speech and language development
HP:0001249Intellectual disability
HP:0001250Seizure
HP:0001251Ataxia
HP:0001252Hypotonia
HP:0001257Spasticity
HP:0001263Global developmental delay
HP:0001265Hyporeflexia
HP:0001268Mental deterioration
HP:0001273Abnormal corpus callosum morphology
HP:0001288Gait disturbance
HP:0001290Generalized hypotonia
HP:0001298Encephalopathy
HP:0001315Reduced tendon reflexes
HP:0001336Myoclonus
HP:0001337Tremor
HP:0001344Absent speech
HP:0001508Failure to thrive

GWAS associations

11 associations (top):

StudyTraitp-value
GCST001762_772Obesity-related traits8.000000e-06
GCST002539_93Schizophrenia5.000000e-08
GCST003013_14White matter hyperintensity burden6.000000e-06
GCST003013_30White matter hyperintensity burden1.000000e-06
GCST004250_17Alanine aminotransferase (ALT) levels after remission induction therapy in actute lymphoblastic leukemia (ALL)2.000000e-06
GCST006627_77Diastolic blood pressure4.000000e-09
GCST006803_52Schizophrenia1.000000e-07
GCST008163_309Height4.000000e-12
GCST008163_601Height8.000000e-06
GCST009600_40Anorexia nervosa, attention-deficit/hyperactivity disorder, autism spectrum disorder, bipolar disorder, major depression, obsessive-compulsive disorder, schizophrenia, or Tourette syndrome (pleiotropy)3.000000e-09
GCST012465_28Bipolar disorder4.000000e-09

EFO canonical traits (4, from GWAS)

EFO IDTrait name
EFO:0005109energy expenditure
EFO:0005665white matter hyperintensity measurement
EFO:0007965response to combination chemotherapy
EFO:0006336diastolic blood pressure

MeSH disease descriptors (2)

DescriptorNameTree numbers
D004827EpilepsyC10.228.140.490
D008607Intellectual DisabilityC10.597.606.360; C23.888.592.604.646; F01.700.687; F03.625.539

Drugs & pharmacology

Drug and pharmacology data

Is drug target: yes

ChEMBL targets (2): CHEMBL2362996 (PROTEIN FAMILY), CHEMBL2363000 (SINGLE PROTEIN)

PharmGKB: 1 entry (VIP=true, CPIC=false)

GtoPdb / IUPHAR curated pharmacology

(IUPHAR/BPS Guide to Pharmacology — expert-curated)

Target class: vgic — Voltage-gated potassium channels (Kv)

Most potent curated ligand interactions (17 total), top 17:

LigandActionAffinityParameter
ScTx1Gating inhibitor7.9pIC50
SsmTx-1Pore blocker7.4pIC50
HaTx1Gating inhibitor7.38pKd
RY796Gating inhibitor6.6pIC50
jingzhaotoxin-IIIGating inhibitor6.4pIC50
jingzhaotoxin-XIGating inhibitor6.1pKd
3-bicyclo[2.2.1]hept-2-yl-benzene-1,2-diolChannel blocker6.0pIC50
RY785Gating inhibitor5.89pIC50
DABCO-C16Channel blocker5.7pIC50
SGTx1Gating inhibitor5.7pKd
linoleic acidActivator5.6pEC50
halothaneChannel blocker3.5pEC50
fampridinePore blocker3.3pIC50
tetraethylammoniumPore blocker2.0pIC50
GxTx-1EGating inhibitor2.0pIC50
Na+Pore blocker1.6pIC50
Ba2+Channel blocker1.5pKd

ChEMBL bioactivities

28 potent at pChembl≥5 of 28 total, top 28 by pChembl (potency: 10 = 0.1 nM, 6 = 1 µM).

pChemblTypeValueUnitMolecule
9.82Ki0.15nMCHEMBL5722941
9.74IC500.18nMCHEMBL5722941
7.30IC5050nMCHEMBL5574868
7.16IC5070nMCHEMBL5573337
7.10IC5080nMCHEMBL5566791
6.60IC50250nMCHEMBL5549888
6.52IC50300nMCHEMBL5570192
6.50IC50320nMCHEMBL5574133
6.50IC50320nMCHEMBL5570536
6.47IC50337nMCHEMBL5570619
6.43IC50370nMCHEMBL5569315
6.41IC50390nMCHEMBL5590036
6.37IC50430nMCHEMBL5574578
6.37IC50430nMCHEMBL5570316
6.32IC50480nMCHEMBL5565837
6.28IC50530nMCHEMBL5563908
6.27IC50540nMCHEMBL5574392
6.26IC50550nMCHEMBL5571030
6.23IC50590nMCHEMBL3577208
6.23IC50590nMCHEMBL5571436
6.18IC50660nMCHEMBL5565317
6.00IC501000nMCHEMBL3577209
6.00IC501000nMCHEMBL5595709
5.96IC501100nMCHEMBL5571104
5.96IC501100nMCHEMBL5565130
5.52IC503000nMCHEMBL5583837
5.45IC503550nMCHEMBL5590132
5.00IC501e+04nMCHEMBL5565384

PubChem BioAssay actives

28 with measured affinity, of 97 total; 27 most potent distinct compounds. Largely complementary to BindingDB; screening values are coarse (µM, 4 dp), so sub-nM hits tie at the floor.

CompoundAssayTypeValueUnit
3-[(1R,2aS,4S,5aS,8aS,10S,11aR,14aS,16S,17aS,19S,20aS,22S,23aS,25S,26aS,28S,29aS,31R,32aS,35aS,36R,38aS,39S,41aS,42S,44aS,45S,48R,50aS,51S,53aS,54S,56aS,57S,59aS,60S,63S,66S,69S,72S,75S,78S,87R,93S,96S,99S)-17a,20a,23a,53a,63-pentakis(4-aminobutyl)-31-[[(2S)-2-[[(2S)-6-amino-2-[[(2S)-5-carbamimidamido-2-[[(2S)-5-carbamimidamido-2-[[(2S)-1-[(2S)-5-oxopyrrolidine-2-carbonyl]pyrrolidine-2-carbonyl]amino]pentanoyl]amino]pentanoyl]amino]hexanoyl]amino]-4-methylpentanoyl]amino]-16,29a,72,78-tetrakis(2-amino-2-oxoethyl)-14a,26a-bis(3-amino-3-oxopropyl)-2a,38a,66-tribenzyl-28,50a,57-tris[(2S)-butan-2-yl]-4,5a,19,42,45,69-hexakis(3-carbamimidamidopropyl)-51,54-bis(2-carboxyethyl)-56a,99-bis(carboxymethyl)-36-[[(2S,3S)-1-(carboxymethylamino)-3-methyl-1-oxopentan-2-yl]carbamoyl]-39,60-bis[(1R)-1-hydroxyethyl]-75,93-bis(hydroxymethyl)-32a,35a,59a-tris[(4-hydroxyphenyl)methyl]-22-(1H-imidazol-4-ylmethyl)-96-(1H-indol-3-ylmethyl)-41a-methyl-25-(2-methylpropyl)-1a,3,4a,6,7a,9,10a,13a,15,16a,18,19a,21,22a,24,25a,27,28a,30,31a,34a,37a,38,40a,41,43a,44,47,49a,50,52a,53,55a,56,58a,59,61a,62,65,68,71,74,77,80,83,86,89,92,95,98-pentacontaoxo-33,34,63a,64a,67a,68a-hexathia-a,2,3a,5,6a,8,9a,12a,14,15a,17,18a,20,21a,23,24a,26,27a,29,30a,33a,36a,37,39a,40,42a,43,46,48a,49,51a,52,54a,55,57a,58,60a,61,64,67,70,73,76,79,82,85,88,91,94,97-pentacontazapentacyclo[85.74.4.448,111.010,14.0144,148]nonahexacontahectan-8a-yl]propanoic acid2198828: Binding affinity to KV channel (unknown origin) assessed as inhibition constantki0.0001uM
2-ethoxy-N-[1-(6-methoxy-2-pyridinyl)ethyl]-5-(2-methylpropanoylamino)benzamide2093281: Inhibition of human KV2.1 stably expressed in HEK293 cells by whole cell patch-clamp assayic500.0500uM
2-ethoxy-N-[1-[3-(methylamino)phenyl]ethyl]-5-(2-methylpropanoylamino)benzamide2093281: Inhibition of human KV2.1 stably expressed in HEK293 cells by whole cell patch-clamp assayic500.0700uM
2-ethoxy-N-[1-(3-methylphenyl)ethyl]-5-(2-methylpropanoylamino)benzamide2093281: Inhibition of human KV2.1 stably expressed in HEK293 cells by whole cell patch-clamp assayic500.0800uM
N-[1-[3-(difluoromethoxy)phenyl]ethyl]-2-ethoxy-5-(2-methylpropanoylamino)benzamide2093281: Inhibition of human KV2.1 stably expressed in HEK293 cells by whole cell patch-clamp assayic500.2500uM
N-[[3-(difluoromethoxy)phenyl]methyl]-2-ethoxy-5-(2-methylpropanoylamino)benzamide2093281: Inhibition of human KV2.1 stably expressed in HEK293 cells by whole cell patch-clamp assayic500.3000uM
N-[1-[3-(azetidin-1-yl)phenyl]ethyl]-2-ethoxy-5-(2-methylpropanoylamino)benzamide2093281: Inhibition of human KV2.1 stably expressed in HEK293 cells by whole cell patch-clamp assayic500.3200uM
2-ethoxy-N-[1-(6-fluoro-2-pyridinyl)ethyl]-5-(2-methylpropanoylamino)benzamide2093281: Inhibition of human KV2.1 stably expressed in HEK293 cells by whole cell patch-clamp assayic500.3200uM
2-ethoxy-5-(2-methylpropanoylamino)-N-[[3-(trifluoromethoxy)phenyl]methyl]benzamide2093281: Inhibition of human KV2.1 stably expressed in HEK293 cells by whole cell patch-clamp assayic500.3370uM
2-ethoxy-N-[1-(3-methoxyphenyl)ethyl]-5-(2-methylpropanoylamino)benzamide2093281: Inhibition of human KV2.1 stably expressed in HEK293 cells by whole cell patch-clamp assayic500.3700uM
2-(dimethylamino)-5-(2-methylpropanoylamino)-N-[[3-(1,3-thiazol-2-yl)phenyl]methyl]benzamide2093281: Inhibition of human KV2.1 stably expressed in HEK293 cells by whole cell patch-clamp assayic500.3900uM
2-ethoxy-5-(2-methylpropanoylamino)-N-[1-[3-(1,3-thiazol-2-yl)phenyl]ethyl]benzamide2093281: Inhibition of human KV2.1 stably expressed in HEK293 cells by whole cell patch-clamp assayic500.4300uM
2-ethoxy-N-[1-(2-methoxy-4-pyridinyl)ethyl]-5-(2-methylpropanoylamino)benzamide2093281: Inhibition of human KV2.1 stably expressed in HEK293 cells by whole cell patch-clamp assayic500.4300uM
2-(dimethylamino)-5-(2-methylpropanoylamino)-N-(1-phenylethyl)benzamide2093281: Inhibition of human KV2.1 stably expressed in HEK293 cells by whole cell patch-clamp assayic500.4800uM
2-ethoxy-5-(2-methylpropanoylamino)-N-[[3-(1,3-thiazol-2-yl)phenyl]methyl]benzamide2093281: Inhibition of human KV2.1 stably expressed in HEK293 cells by whole cell patch-clamp assayic500.5300uM
2-(dimethylamino)-5-(2-methylpropanoylamino)-N-(pyridin-2-ylmethyl)benzamide2093281: Inhibition of human KV2.1 stably expressed in HEK293 cells by whole cell patch-clamp assayic500.5400uM
5-(cyclobutanecarbonylamino)-2-ethoxy-N-[1-[3-(1,3-thiazol-2-yl)phenyl]ethyl]benzamide2093281: Inhibition of human KV2.1 stably expressed in HEK293 cells by whole cell patch-clamp assayic500.5500uM
2-[2-(2,6-dimethoxybenzoyl)-3-hydroxy-6-methoxy-5-methylphenyl]-3-(2,6-dimethoxyphenyl)-4-hydroxy-7-methoxy-6-methylinden-1-one1225481: Inhibition of Kv2.1 channel in human INS1 cells assessed as inhibition of outward K+ current by electrophysiology/patch clamp techniqueic500.5900uM
5-(2-methylpropanoylamino)-2-propoxy-N-[1-[3-(1,3-thiazol-2-yl)phenyl]ethyl]benzamide2093281: Inhibition of human KV2.1 stably expressed in HEK293 cells by whole cell patch-clamp assayic500.5900uM
2-ethoxy-5-(2-methylpropanoylamino)-N-[1-(3-pyrimidin-2-ylphenyl)ethyl]benzamide2093281: Inhibition of human KV2.1 stably expressed in HEK293 cells by whole cell patch-clamp assayic500.6600uM
1,2-bis[2-(2,6-dimethoxybenzoyl)-3-hydroxy-6-methoxy-5-methylphenyl]ethanone1225481: Inhibition of Kv2.1 channel in human INS1 cells assessed as inhibition of outward K+ current by electrophysiology/patch clamp techniqueic501.0000uM
propan-2-yl N-[4-ethoxy-3-[1-[3-(1,3-thiazol-2-yl)phenyl]ethylcarbamoyl]phenyl]carbamate2093281: Inhibition of human KV2.1 stably expressed in HEK293 cells by whole cell patch-clamp assayic501.0000uM
ethyl N-[4-ethoxy-3-[1-[3-(1,3-thiazol-2-yl)phenyl]ethylcarbamoyl]phenyl]carbamate2093281: Inhibition of human KV2.1 stably expressed in HEK293 cells by whole cell patch-clamp assayic501.1000uM
5-(cyclopropanecarbonylamino)-2-ethoxy-N-[1-[3-(1,3-thiazol-2-yl)phenyl]ethyl]benzamide2093281: Inhibition of human KV2.1 stably expressed in HEK293 cells by whole cell patch-clamp assayic501.1000uM
2-methoxy-5-(2-methylpropanoylamino)-N-[1-[3-(1,3-thiazol-2-yl)phenyl]ethyl]benzamide2093281: Inhibition of human KV2.1 stably expressed in HEK293 cells by whole cell patch-clamp assayic503.0000uM
2-(dimethylamino)-5-(2-methylpropanoylamino)-N-[(3-phenylphenyl)methyl]benzamide2093281: Inhibition of human KV2.1 stably expressed in HEK293 cells by whole cell patch-clamp assayic503.5500uM
2-ethoxy-5-(ethylsulfonylamino)-N-[1-[3-(1,3-thiazol-2-yl)phenyl]ethyl]benzamide2093281: Inhibition of human KV2.1 stably expressed in HEK293 cells by whole cell patch-clamp assayic5010.0000uM

CTD chemical–gene interactions

42 total (human), top 30 by PubMed support.

ChemicalActions (top 5)PubMed papers
Valproic Acidaffects cotreatment, decreases expression, affects expression, increases expression, increases methylation7
Tetrachlorodibenzodioxindecreases expression, decreases reaction, affects expression3
Benzo(a)pyrenedecreases expression, decreases methylation, increases methylation2
Dexamethasoneincreases expression, affects cotreatment2
Phenylmercuric Acetateaffects cotreatment, decreases expression2
Tretinoinaffects cotreatment, increases expression, decreases expression2
aristolochic acid Iincreases expression1
methylmercuric chloridedecreases expression1
lead acetatedecreases expression1
trichostatin Adecreases expression1
mono-(2-ethylhexyl)phthalatedecreases expression1
pentabromodiphenyl etherdecreases expression1
CGP 52608affects binding, increases reaction1
4-(5-benzo(1,3)dioxol-5-yl-4-pyridin-2-yl-1H-imidazol-2-yl)benzamideaffects cotreatment, decreases expression1
abrinedecreases expression1
2,2’,4,4’-tetrabromodiphenyl etherdecreases expression1
dorsomorphinaffects cotreatment, decreases expression1
licochalcone Bincreases expression1
jinfukangincreases expression, affects cotreatment1
Air Pollutantsdecreases expression, increases abundance1
Amphotericin Bdecreases expression1
Arsenicaffects methylation1
Ascorbic Acidaffects cotreatment, increases expression1
Atrazinedecreases expression1
Vehicle Emissionsdecreases expression, increases abundance1
Cisplatinaffects cotreatment, increases expression1
Diethylhexyl Phthalatedecreases expression1
Doxorubicindecreases expression1
Endosulfandecreases expression, decreases reaction1
Formaldehydedecreases expression1

ChEMBL screening assays

28 unique, capped per target: 27 binding, 1 toxicity

Representative assays (with source publication via chembl_document):

Assay IDTypeDescriptionSource paper
CHEMBL1787442BindingInhibition of human recombinant Kv channel at 10 uM by radioligand binding assayStructure-activity relationships of pyrrole based S-nitrosoglutathione reductase inhibitors: pyrrole regioisomers and propionic acid replacement. — Bioorg Med Chem Lett
CHEMBL5522525ToxicityInhibition of human K+ channel by automated electrophysiologyDiscovery of Clinical Candidate AZD5462, a Selective Oral Allosteric RXFP1 Agonist for Treatment of Heart Failure. — J Med Chem

Cellosaurus cell lines

4 cell lines: 3 spontaneously immortalized cell line, 1 induced pluripotent stem cell

First 10 cell lines (id-ordered, not curated):

CellosaurusNameCategorySex
CVCL_A9Z5ZJSHi001-AInduced pluripotent stem cellFemale
CVCL_C0Y3B’SYS CHO Kv2.1Spontaneously immortalized cell lineFemale
CVCL_D1K2PrecisION hKv2.1-CHOSpontaneously immortalized cell lineFemale
CVCL_D1K3PrecisION hKv2.1/Kv9.2-CHOSpontaneously immortalized cell lineFemale

Clinical trials (associated diseases)

199 trials via MONDO — disease-level, not drug-specific.

TrialPhaseStatusTitle
NCT05657860PHASE4COMPLETEDGuanfacine Extended Release for the Reduction of Aggression and Self-injurious Behavior Associated With Prader-Willi Syndrome
NCT05744479PHASE4RECRUITINGMetformin for Antipsychotic-induced Weight Gain in Adults With Intellectual Disability
NCT06107829PHASE4WITHDRAWNValbenazine Treatment of Tardive Dyskinesia in Adults With Intellectual/Developmental Disabilities
NCT06997198PHASE4NOT_YET_RECRUITINGDeutetrabenazine Treatment for Tardive Dyskinesia in Intellectual/Developmental Disabilities
NCT02270736PHASE3COMPLETEDClinical 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
NCT02304302PHASE2COMPLETEDDown Syndrome Memantine Follow-up Study
NCT03862950PHASE2COMPLETEDA Trial of Metformin in Individuals With Fragile X Syndrome (Met)
NCT04529226PHASE2UNKNOWNStudy to Compare Clozapine vs Treatment as Usual in People With Intellectual Disability & Treatment-resistant Psychosis
NCT04821856PHASE2COMPLETEDEvaluation of the Effectiveness of Cannabidiol in Treating Severe Behavioural Problems in Children and Adolescents With Intellectual Disability
NCT05273320PHASE1COMPLETEDClinical Trial of Nabilone for Aggression in Adults With Intellectual and Developmental Disabilities
NCT05301361PHASE1ENROLLING_BY_INVITATIONSensitivity of the NIH Toolbox to Stimulant Treatment in Intellectual Disabilities
NCT06016764PHASE1COMPLETEDUse of MRI and cTBS for Catatonia in Autism
NCT06586827PHASE1COMPLETEDImpact of Competency-Based Training and Technical Assistance Employment Outcomes of Individuals With ID/DD
NCT07531940PHASE1NOT_YET_RECRUITINGEscalating Doses of Memantine in Down Syndrome (MEDS-123)
NCT06310681Not specifiedCOMPLETEDPilot Testing of a Co-adapted Group Programme for Parents/Carers of Children With Complex Neurodisability
NCT07303049Not specifiedNOT_YET_RECRUITINGCognitive Benefit of Intensive Rehabilitation Using Rhythmic Music Training in Children With Complex Neurodevelopmental Disorder
NCT03479476PHASE2/PHASE3COMPLETEDA Trial of Metformin in Individuals With Fragile X Syndrome
NCT02616796PHASE1/PHASE2COMPLETEDEffects of Social Gaze Training on Brain and Behavior in Fragile X Syndrome
NCT06860672EARLY_PHASE1RECRUITINGClinical Trial of the Dual Vector Base Editor for the Treatment of the CHD3-R1025W Mutation
NCT00597948Not specifiedCOMPLETEDHealthy Lifestyles for People With Intellectual Disabilities
NCT01087320Not specifiedRECRUITINGGenome Medical Sequencing for Gene Discovery
NCT01652963Not specifiedUNKNOWNPicture-based Computerised Assessment and Training of Cognitive Behaviour Therapy Skills
NCT01695395Not specifiedCOMPLETEDMental Health Care Provision for Adults With Intellectual Disability and a Mental Disorder
NCT01867554Not specifiedCOMPLETEDResearch and Characterization of New Genes Involved in Intellectual Disability
NCT01915381Not specifiedCOMPLETEDImproving Adherence Healthy Lifestyle With a Smartphone Application Based on Adults With Intellectual Disabilities
NCT01988623Not specifiedCOMPLETEDPivotal Response Treatment for Individuals With Intellectual Disabilities
NCT02099773Not specifiedCOMPLETEDSupport Staff-client Interactions With Augmentative and Alternative Communication
NCT02136849Not specifiedCOMPLETEDInter-regional Project of the Great Western Exploration Approach for Exome Molecular Causes Severe Intellectual Disability Isolated or Syndromic
NCT02225041Not specifiedCOMPLETEDSedation Strategy and Cognitive Outcome After Critical Illness in Early Childhood
NCT02414438Not specifiedCOMPLETEDEstablishing the Clinical Utility of First StepDx PLUS and NextStepDx PLUS Study
NCT02451761Not specifiedCOMPLETEDApparently Balanced Chromosomal Translocation/ Next-generation Sequencing/ Intellectual Disability
NCT02461420Not specifiedACTIVE_NOT_RECRUITINGMapping the Genotype, Phenotype, and Natural History of Phelan-McDermid Syndrome
NCT02461459Not specifiedACTIVE_NOT_RECRUITINGAutism Spectrum Disorder (ASD) and Intellectual Disability (ID) Determinants in Tuberous Sclerosis Complex (TSC)
NCT02486081Not specifiedCOMPLETEDDevelopment and Application-Smart Football for Movement Evaluation and Training in the Special Education Population
NCT02504502Not specifiedCOMPLETEDEnhancing Genomic Laboratory Reports to Enhance Communication and Empower Patients
NCT02513277Not specifiedCOMPLETEDDiabetes Screening & Prevention for People With Learning (Intellectual) Disabilities:STOP Diabetes Study
NCT02561754Not specifiedCOMPLETEDWeight Management for Adolescents With IDD
NCT02591446Not specifiedCOMPLETEDTranscranial Magnetic Stimulation Studies in Autism Spectrum Disorders
NCT02714868Not specifiedCOMPLETEDEvaluation of Project TEAM (Teens Making Environmental and Activity Modifications)
NCT02721394Not specifiedUNKNOWNFCT With Young Children With ID in the UK: A Feasibility Project V.1