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KCNN1 potassium calcium-activated channel subfamily N member 1 [ Homo sapiens (human) ]

Gene ID: 3780, updated on 28-Oct-2024

Summary

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Official Symbol
KCNN1provided by HGNC
Official Full Name
potassium calcium-activated channel subfamily N member 1provided by HGNC
Primary source
HGNC:HGNC:6290
See related
Ensembl:ENSG00000105642 MIM:602982; AllianceGenome:HGNC:6290
Gene type
protein coding
RefSeq status
REVIEWED
Organism
Homo sapiens
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; Catarrhini; Hominidae; Homo
Also known as
SK1; hSK1; SKCA1; KCa2.1
Summary
Action potentials in vertebrate neurons are followed by an afterhyperpolarization (AHP) that may persist for several seconds and may have profound consequences for the firing pattern of the neuron. Each component of the AHP is kinetically distinct and is mediated by different calcium-activated potassium channels. The protein encoded by this gene is activated before membrane hyperpolarization and is thought to regulate neuronal excitability by contributing to the slow component of synaptic AHP. The encoded protein is an integral membrane protein that forms a voltage-independent calcium-activated channel with three other calmodulin-binding subunits. This gene is a member of the KCNN family of potassium channel genes. [provided by RefSeq, Jul 2008]
Expression
Biased expression in brain (RPKM 5.8), testis (RPKM 0.7) and 1 other tissue See more
Orthologs
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Genomic context

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See KCNN1 in Genome Data Viewer
Location:
19p13.11
Exon count:
14
Annotation release Status Assembly Chr Location
RS_2024_08 current GRCh38.p14 (GCF_000001405.40) 19 NC_000019.10 (17951290..18000085)
RS_2024_08 current T2T-CHM13v2.0 (GCF_009914755.1) 19 NC_060943.1 (18085382..18134163)
RS_2024_09 previous assembly GRCh37.p13 (GCF_000001405.25) 19 NC_000019.9 (18062099..18110894)

Chromosome 19 - NC_000019.10Genomic Context describing neighboring genes Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr19:17984524-17985296 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr19:17988651-17989150 Neighboring gene solute carrier family 5 member 5 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 14288 Neighboring gene NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr19:18029877-18030622 Neighboring gene H3K27ac hESC enhancer GRCh37_chr19:18030623-18031368 Neighboring gene H3K27ac hESC enhancer GRCh37_chr19:18033123-18033624 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 14289 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 14290 Neighboring gene H3K27ac hESC enhancer GRCh37_chr19:18042902-18043440 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 14291 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 14292 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 10363 Neighboring gene coiled-coil domain containing 124 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 10364 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr19:18062016-18062634 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr19:18062635-18063252 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr19:18063253-18063870 Neighboring gene MPRA-validated peak3398 silencer Neighboring gene H3K4me1 hESC enhancer GRCh37_chr19:18073163-18073735 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr19:18076903-18077620 Neighboring gene MPRA-validated peak3399 silencer Neighboring gene RNA, 5S ribosomal pseudogene 468 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr19:18095189-18095870 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr19:18098837-18099338 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr19:18099339-18099838 Neighboring gene Sharpr-MPRA regulatory region 11250 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr19:18107595-18108096 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 10367 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 14293 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr19:18124072-18124572 Neighboring gene arrestin domain containing 2 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 14294 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr19:18132997-18133546 Neighboring gene CS pseudogene 3

Genomic regions, transcripts, and products

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Go to nucleotide: Graphics FASTA GenBank

Expression

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  • Project title: HPA RNA-seq normal tissues HPA RNA-seq normal tissues
  • Description: RNA-seq was performed of tissue samples from 95 human individuals representing 27 different tissues in order to determine tissue-specificity of all protein-coding genes
  • BioProject: PRJEB4337
  • Publication: PMID 24309898
  • Analysis date: Wed Apr 4 07:08:55 2018

Bibliography

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Related articles in PubMed

  1. Differential regulation of K(Ca) 2.1 (KCNN1) K(+) channel expression by histone deacetylases in atrial fibrillation with concomitant heart failure. Rahm AK, et al. Physiol Rep, 2021 Jun. PMID 34111326, Free PMC Article
  2. Targeting K(ca)3.1 Channels in Cancer. Todesca LM, et al. Cell Physiol Biochem, 2021 May 28. PMID 34043300
  3. Gene structure and chromosome mapping of the human small-conductance calcium-activated potassium channel SK1 gene (KCNN1). Litt M, et al. Cytogenet Cell Genet, 1999. PMID 10516439
  4. An amino acid outside the pore region influences apamin sensitivity in small conductance Ca2+-activated K+ channels. Nolting A, et al. J Biol Chem, 2007 Feb 9. PMID 17142458, Free PMC Article
  5. The pharmacology of hSK1 Ca2+-activated K+ channels expressed in mammalian cell lines. Shah M, et al. Br J Pharmacol, 2000 Feb. PMID 10683185, Free PMC Article

See all (29) citations in PubMed

GeneRIFs: Gene References Into Functions

What's a GeneRIF?
  1. KCNN1 promotes proliferation and metastasis of breast cancer via ERLIN2-mediated stabilization and K63-dependent ubiquitination of Cyclin B1.
    Title: KCNN1 promotes proliferation and metastasis of breast cancer via ERLIN2-mediated stabilization and K63-dependent ubiquitination of Cyclin B1.
  2. A single coiled-coil domain mutation in hIKCa channel subunits disrupts preferential formation of heteromeric hSK1:hIKCa channels.
    Title: A single coiled-coil domain mutation in hIKCa channel subunits disrupts preferential formation of heteromeric hSK1:hIKCa channels.
  3. Differential regulation of KCa 2.1 (KCNN1) K(+) channel expression by histone deacetylases in atrial fibrillation with concomitant heart failure.
    Title: Differential regulation of K(Ca) 2.1 (KCNN1) K(+) channel expression by histone deacetylases in atrial fibrillation with concomitant heart failure.
  4. Targeting Kca3.1 Channels in Cancer.
    Title: Targeting K(ca)3.1 Channels in Cancer.
  5. Data demonstrate that IKCa and SK1 subunits prefer to form heteromeric channels when coexpressed in a heterologous system that will alter their responsiveness to pharmacological tools typically used to define their expression pattern.
    Title: Preferred Formation of Heteromeric Channels between Coexpressed SK1 and IKCa Channel Subunits Provides a Unique Pharmacological Profile of Ca(2+)-Activated Potassium Channels.
  6. SK current is increased via the enhanced activation of CaMKII in patients with atrial fibrillation.
    Title: Ca2+/Calmodulin-Dependent Protein Kinase II (CaMKII) Increases Small-Conductance Ca2+-Activated K+ Current in Patients with Chronic Atrial Fibrillation.
  7. Differentiated dopaminergic neurons expressed low levels of SK2 channels and high levels of SK1 and SK3 channels.
    Title: Subcellular expression and neuroprotective effects of SK channels in human dopaminergic neurons.
  8. Decreased expression of small-conductance Ca2+-activated K+ channels SK1 and SK2 in human chronic atrial fibrillation.
    Title: Decreased expression of small-conductance Ca2+-activated K+ channels SK1 and SK2 in human chronic atrial fibrillation.
  9. IK1-like immunoreactivity is observed in enteric neurons of human colon, with a significant decrease of IK1-positive cells in inflamed colon from patients with Crohn's disease and ulcerative colitis.
    Title: Decreased potassium channel IK1 and its regulator neurotrophin-3 (NT-3) in inflamed human bowel.
Submit: New GeneRIF Correction

Phenotypes

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Find tests for this gene in the NIH Genetic Testing Registry (GTR)

Review eQTL and phenotype association data in this region using PheGenI

Variation

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See variants in ClinVar

See studies and variants in dbVar

See Variation Viewer (GRCh37.p13)

See Variation Viewer (GRCh38)

Genotypes

HIV-1 interactions

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Replication interactions

Interaction Pubs
Knockdown of potassium intermediate/small conductance calcium-activated channel, subfamily N, member 1 (KCNN1) by siRNA enhances the early stages of HIV-1 replication in HeLa-CD4 cells infected with viral pseudotypes HIV89.6R and HIV8.2N PubMed

Protein interactions

Protein Gene Interaction Pubs
Envelope surface glycoprotein gp120 env HIV-1 gp120 from both CCR5- and CXCR4-tropic HIV-1 strains opens calcium-activated potassium (K(Ca)), chloride, and calcium-permeant nonselective cation channels in macrophages; these signals are mediated by CCR5 and CXCR4 PubMed

Go to the HIV-1, Human Interaction Database

Interactions

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Products Interactant Other Gene Complex Source Pubs Description

General gene information

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Markers

Homology

Gene Ontology Provided by GOA

Function Evidence Code Pubs
enables calcium-activated potassium channel activity TAS
Traceable Author Statement
more info
 PubMed 
enables calmodulin binding IBA
Inferred from Biological aspect of Ancestor
more info
  
enables inward rectifier potassium channel activity IDA
Inferred from Direct Assay
more info
 PubMed 
enables small conductance calcium-activated potassium channel activity IBA
Inferred from Biological aspect of Ancestor
more info
  
enables small conductance calcium-activated potassium channel activity IDA
Inferred from Direct Assay
more info
 PubMed 
Process Evidence Code Pubs
involved_in chemical synaptic transmission TAS
Traceable Author Statement
more info
 PubMed 
involved_in potassium ion transmembrane transport IBA
Inferred from Biological aspect of Ancestor
more info
  
involved_in potassium ion transmembrane transport IDA
Inferred from Direct Assay
more info
 PubMed 
involved_in potassium ion transport TAS
Traceable Author Statement
more info
 PubMed 
Component Evidence Code Pubs
located_in Z disc IEA
Inferred from Electronic Annotation
more info
  
is_active_in neuron projection IBA
Inferred from Biological aspect of Ancestor
more info
  
is_active_in neuronal cell body IBA
Inferred from Biological aspect of Ancestor
more info
  
is_active_in plasma membrane IBA
Inferred from Biological aspect of Ancestor
more info
  
located_in plasma membrane TAS
Traceable Author Statement
more info
  
located_in synapse IEA
Inferred from Electronic Annotation
more info
  
part_of voltage-gated potassium channel complex TAS
Traceable Author Statement
more info
 PubMed 

General protein information

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Preferred Names
small conductance calcium-activated potassium channel protein 1
Names
potassium channel, calcium activated intermediate/small conductance subfamily N alpha, member 1
potassium intermediate/small conductance calcium-activated channel, subfamily N, member 1
small conductance calcium-activated potassium channel 1

NCBI Reference Sequences (RefSeq)

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RefSeqs maintained independently of Annotated Genomes

These reference sequences exist independently of genome builds. Explain

These reference sequences are curated independently of the genome annotation cycle, so their versions may not match the RefSeq versions in the current genome build. Identify version mismatches by comparing the version of the RefSeq in this section to the one reported in Genomic regions, transcripts, and products above.

Genomic

  1. NG_029893.1 RefSeqGene

    Range
    20806..53784
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. NM_001386974.1 → NP_001373903.1  small conductance calcium-activated potassium channel protein 1 isoform 1

    Status: REVIEWED

    Source sequence(s)
    AC020904
    Consensus CDS
    CCDS67611.1
    UniProtKB/Swiss-Prot
    Q5KR10, Q6DJU4, Q92952
    UniProtKB/TrEMBL
    A0A087X2E7
    Related
    ENSP00000507021.1, ENST00000684775.1
    Conserved Domains (3) summary
    smart01053
    Location:384 → 461
    CaMBD; Calmodulin binding domain
    pfam03530
    Location:96 → 203
    SK_channel; Calcium-activated SK potassium channel
    pfam07885
    Location:291 → 370
    Ion_trans_2; Ion channel

  2. NM_001386975.1 → NP_001373904.1  small conductance calcium-activated potassium channel protein 1 isoform 2

    Status: REVIEWED

    Source sequence(s)
    AC020904
    Consensus CDS
    CCDS92562.1
    UniProtKB/TrEMBL
    A0A087X2E7, A0A804HIW7
    Related
    ENSP00000507977.1, ENST00000683588.1
    Conserved Domains (3) summary
    smart01053
    Location:387 → 464
    CaMBD; Calmodulin binding domain
    pfam03530
    Location:96 → 203
    SK_channel; Calcium-activated SK potassium channel
    pfam07885
    Location:291 → 373
    Ion_trans_2; Ion channel

  3. NM_001386976.1 → NP_001373905.1  small conductance calcium-activated potassium channel protein 1 isoform 2

    Status: REVIEWED

    Source sequence(s)
    AC005602, AC020904
    Consensus CDS
    CCDS92562.1
    UniProtKB/TrEMBL
    A0A087X2E7, A0A804HIW7
    Related
    ENSP00000507255.1, ENST00000682733.1
    Conserved Domains (3) summary
    smart01053
    Location:387 → 464
    CaMBD; Calmodulin binding domain
    pfam03530
    Location:96 → 203
    SK_channel; Calcium-activated SK potassium channel
    pfam07885
    Location:291 → 373
    Ion_trans_2; Ion channel

  4. NM_001386977.1 → NP_001373906.1  small conductance calcium-activated potassium channel protein 1 isoform 3

    Status: REVIEWED

    Source sequence(s)
    AC020904
    Consensus CDS
    CCDS92563.1
    UniProtKB/TrEMBL
    A0A087X2E7, A0A804HIF9
    Related
    ENSP00000507047.1, ENST00000682421.1
    Conserved Domains (3) summary
    smart01053
    Location:384 → 458
    CaMBD; Calmodulin binding domain
    pfam03530
    Location:96 → 203
    SK_channel; Calcium-activated SK potassium channel
    pfam07885
    Location:291 → 370
    Ion_trans_2; Ion channel

  5. NM_002248.5 → NP_002239.2  small conductance calcium-activated potassium channel protein 1 isoform 1

    See identical proteins and their annotated locations for NP_002239.2

    Status: REVIEWED

    Source sequence(s)
    AC005602, AC020904
    Consensus CDS
    CCDS67611.1
    UniProtKB/Swiss-Prot
    Q5KR10, Q6DJU4, Q92952
    UniProtKB/TrEMBL
    A0A087X2E7
    Related
    ENSP00000476519.1, ENST00000222249.13
    Conserved Domains (3) summary
    smart01053
    Location:384 → 461
    CaMBD; Calmodulin binding domain
    pfam03530
    Location:96 → 203
    SK_channel; Calcium-activated SK potassium channel
    pfam07885
    Location:291 → 370
    Ion_trans_2; Ion channel

RNA

  1. NR_170373.1 RNA Sequence

    Status: REVIEWED

    Source sequence(s)
    AC020904
    Related
    ENST00000683930.1

  2. NR_170374.1 RNA Sequence

    Status: REVIEWED

    Source sequence(s)
    AC020904
    Related
    ENST00000682726.1

RefSeqs of Annotated Genomes: GCF_000001405.40-RS_2024_08

The following sections contain reference sequences that belong to a specific genome build. Explain

Reference GRCh38.p14 Primary Assembly

Genomic

  1. NC_000019.10 Reference GRCh38.p14 Primary Assembly

    Range
    17951290..18000085
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_011528004.2 → XP_011526306.1  small conductance calcium-activated potassium channel protein 1 isoform X1

    UniProtKB/TrEMBL
    A0A087X2E7
    Related
    ENSP00000484926.2, ENST00000615435.2
    Conserved Domains (4) summary
    pfam02888
    Location:470 → 542
    CaMBD; Calmodulin binding domain
    pfam03530
    Location:179 → 286
    SK_channel; Calcium-activated SK potassium channel
    pfam07885
    Location:374 → 456
    Ion_trans_2; Ion channel
    pfam15240
    Location:35 → 146
    Pro-rich; Proline-rich

Alternate T2T-CHM13v2.0

Genomic

  1. NC_060943.1 Alternate T2T-CHM13v2.0

    Range
    18085382..18134163
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_054320942.1 → XP_054176917.1  small conductance calcium-activated potassium channel protein 1 isoform X1

Nucleotide Protein
Heading Accession and Version
Protein Accession Links
GenPept Link UniProtKB Link
Q92952.2 GenPept UniProtKB/Swiss-Prot:Q92952

Gene LinkOut

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