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CABP1 calcium binding protein 1 [ Homo sapiens (human) ]

Gene ID: 9478, updated on 2-May-2024

Summary

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Official Symbol
CABP1provided by HGNC
Official Full Name
calcium binding protein 1provided by HGNC
Primary source
HGNC:HGNC:1384
See related
Ensembl:ENSG00000157782 MIM:605563; AllianceGenome:HGNC:1384
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
CALBRAIN; HCALB_BR
Summary
Calcium binding proteins are an important component of calcium mediated cellular signal transduction. This gene encodes a protein that belongs to a subfamily of calcium binding proteins which share similarity to calmodulin. The protein encoded by this gene regulates the gating of voltage-gated calcium ion channels. This protein inhibits calcium-dependent inactivation and supports calcium-dependent facilitation of ion channels containing voltage-dependent L-type calcium channel subunit alpha-1C. This protein also regulates calcium-dependent activity of inositol 1,4,5-triphosphate receptors, P/Q-type voltage-gated calcium channels, and transient receptor potential channel TRPC5. This gene is predominantly expressed in retina and brain. Alternative splicing results in multiple transcript variants encoding disinct isoforms. [provided by RefSeq, Jul 2012]
Expression
Biased expression in brain (RPKM 5.5), fat (RPKM 2.2) and 5 other tissues See more
Orthologs
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Genomic context

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Location:
12q24.31
Exon count:
9
Annotation release Status Assembly Chr Location
RS_2023_10 current GRCh38.p14 (GCF_000001405.40) 12 NC_000012.12 (120640626..120680866)
RS_2023_10 current T2T-CHM13v2.0 (GCF_009914755.1) 12 NC_060936.1 (120629781..120669988)
105.20220307 previous assembly GRCh37.p13 (GCF_000001405.25) 12 NC_000012.11 (121078429..121105127)

Chromosome 12 - NC_000012.12Genomic Context describing neighboring genes Neighboring gene H3K4me1 hESC enhancer GRCh37_chr12:121034858-121035358 Neighboring gene ribosomal protein L11 pseudogene 5 Neighboring gene CABP1 divergent transcript Neighboring gene NANOG hESC enhancer GRCh37_chr12:121076316-121076817 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 4957 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 4958 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 4959 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 4960 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr12:121096155-121096656 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr12:121096657-121097156 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr12:121104512-121105033 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr12:121105034-121105554 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 7146 Neighboring gene uncharacterized LOC105370029 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 7147 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 4961 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 4962 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 7148 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 7149 Neighboring gene H3K27ac hESC enhancer GRCh37_chr12:121124755-121125256 Neighboring gene malectin Neighboring gene uncharacterized LOC124903035 Neighboring gene uncharacterized LOC124903036 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr12:121148178-121149020 Neighboring gene unc-119 lipid binding chaperone B

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
  • 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. Nuclear magnetic resonance structure of calcium-binding protein 1 in a Ca(2+) -bound closed state: implications for target recognition. Park S, et al. Protein Sci, 2011 Aug. PMID 21608059, Free PMC Article
  2. CaBP1 regulates voltage-dependent inactivation and activation of Ca(V)1.2 (L-type) calcium channels. Oz S, et al. J Biol Chem, 2011 Apr 22. PMID 21383011, Free PMC Article
  3. Structural insights into Ca2+-dependent regulation of inositol 1,4,5-trisphosphate receptors by CaBP1. Li C, et al. J Biol Chem, 2009 Jan 23. PMID 19008222, Free PMC Article
  4. Structural analysis of Mg2+ and Ca2+ binding to CaBP1, a neuron-specific regulator of calcium channels. Wingard JN, et al. J Biol Chem, 2005 Nov 11. PMID 16147998, Free PMC Article
  5. Calbrain, a novel two EF-hand calcium-binding protein that suppresses Ca2+/calmodulin-dependent protein kinase II activity in the brain. Yamaguchi K, et al. J Biol Chem, 1999 Feb 5. PMID 9920909

See all (29) citations in PubMed

GeneRIFs: Gene References Into Functions

What's a GeneRIF?
  1. the faster migrating Tg adduct C primarily engages the CaBP1/P5 oxidoreductase, whereas the slower migrating Tg adduct A primarily engages ERp72.
    Title: Transient covalent interactions of newly synthesized thyroglobulin with oxidoreductases of the endoplasmic reticulum.
  2. Present the NMR structure of full-length CaBP1 with Ca(2+) bound at the first, third, and fourth EF-hands.
    Title: Nuclear magnetic resonance structure of calcium-binding protein 1 in a Ca(2+) -bound closed state: implications for target recognition.
  3. Different kinetics of Ca-dependent binding step between caldendrin and calmodulin with AKAP79 suggest their different roles in synaptic function.
    Title: Kinetic and mechanistic differences in the interactions between caldendrin and calmodulin with AKAP79 suggest different roles in synaptic function.
  4. We demonstrate that calmodulin and caldendrin compete for a partially overlapping binding site on AKAP79 and that their binding is differentially dependent on calcium
    Title: AKAP79/150 interacts with the neuronal calcium-binding protein caldendrin.
  5. CaBP1 regulates voltage-dependent inactivation and activation of Ca(V)1.2 (L-type) calcium channels
    Title: CaBP1 regulates voltage-dependent inactivation and activation of Ca(V)1.2 (L-type) calcium channels.
  6. Structural basis for the differential effects of CaBP1 and calmodulin on Ca(V)1.2 calcium-dependent inactivation.
    Title: Structural basis for the differential effects of CaBP1 and calmodulin on Ca(V)1.2 calcium-dependent inactivation.
  7. CaBP1 may regulate Ca2+-dependent activity of inositol 1,4,5-trisphosphate receptors by promoting structural contacts between the suppressor and core domains
    Title: Structural insights into Ca2+-dependent regulation of inositol 1,4,5-trisphosphate receptors by CaBP1.
  8. the importance of CaBP1s in modulating the stimulus-secretion coupling in excitable cells.
    Title: Ca2+ binding protein-1 inhibits Ca2+ currents and exocytosis in bovine chromaffin cells.
  9. We describe a new role for CaBP1 in regulation of Ca2+ influx through Ca(v)1.2 (L-type) Ca2+ channels. CaBP1 interacts directly with the alpha1 subunit of Ca(v)1.2 at sites that also bind Calmodulin
    Title: Ca2+-binding protein-1 facilitates and forms a postsynaptic complex with Cav1.2 (L-type) Ca2+ channels.
  10. CaBP1 is able to specifically regulate InsP3 receptor-mediated alterations in [Ca2+]i during agonist stimulation.
    Title: Calcium-binding protein 1 is an inhibitor of agonist-evoked, inositol 1,4,5-trisphosphate-mediated calcium signaling.
Submit: New GeneRIF Correction See all GeneRIFs (13)

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

Pathways from PubChem

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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 channel regulator activity IBA
Inferred from Biological aspect of Ancestor
more info
  
enables calcium ion binding IEA
Inferred from Electronic Annotation
more info
  
enables calcium-dependent protein binding IPI
Inferred from Physical Interaction
more info
 PubMed 
enables enzyme inhibitor activity TAS
Traceable Author Statement
more info
 PubMed 
enables nuclear localization sequence binding ISS
Inferred from Sequence or Structural Similarity
more info
  
enables protein binding IPI
Inferred from Physical Interaction
more info
 PubMed 
Process Evidence Code Pubs
involved_in negative regulation of protein import into nucleus ISS
Inferred from Sequence or Structural Similarity
more info
  
involved_in visual perception IBA
Inferred from Biological aspect of Ancestor
more info
  
involved_in visual perception ISS
Inferred from Sequence or Structural Similarity
more info
  
Component Evidence Code Pubs
located_in Golgi membrane IDA
Inferred from Direct Assay
more info
 PubMed 
located_in cell cortex IEA
Inferred from Electronic Annotation
more info
  
is_active_in cytoplasm IBA
Inferred from Biological aspect of Ancestor
more info
  
located_in cytoskeleton IEA
Inferred from Electronic Annotation
more info
  
located_in extracellular space HDA PubMed 
located_in perinuclear region of cytoplasm IEA
Inferred from Electronic Annotation
more info
  
located_in plasma membrane IDA
Inferred from Direct Assay
more info
 PubMed 
located_in postsynaptic density IDA
Inferred from Direct Assay
more info
 PubMed 

General protein information

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Preferred Names
calcium-binding protein 1
Names
calcium binding protein 5
caldendrin

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_029321.2 RefSeqGene

    Range
    5002..31700
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. NM_001033677.2 → NP_001028849.1  calcium-binding protein 1 isoform 3

    See identical proteins and their annotated locations for NP_001028849.1

    Status: REVIEWED

    Description
    Transcript Variant: This variant (3) is the longest transcript and encodes the longest isoform (3).
    Source sequence(s)
    AL533429, BC030201
    Consensus CDS
    CCDS31913.1
    UniProtKB/Swiss-Prot
    O95663, Q8N6H5, Q9NZU7, Q9NZU8
    Related
    ENSP00000317310.3, ENST00000316803.8
    Conserved Domains (2) summary
    PTZ00184
    Location:221 → 368
    PTZ00184; calmodulin; Provisional
    cd00051
    Location:306 → 369
    EFh; EF-hand, calcium binding motif; A diverse superfamily of calcium sensors and calcium signal modulators; most examples in this alignment model have 2 active canonical EF hands. Ca2+ binding induces a conformational change in the EF-hand motif, leading to ...

  2. NM_004276.5 → NP_004267.2  calcium-binding protein 1 isoform 2

    See identical proteins and their annotated locations for NP_004267.2

    Status: REVIEWED

    Description
    Transcript Variant: This variant (2) has an alternate 5' exon, as compared to variant 3. The encoded isoform 2 has a distinct and shorter N-terminus, as compared to isoform 3.
    Source sequence(s)
    AC069234, AF169148, BC030201, BM716422
    Consensus CDS
    CCDS9204.1
    UniProtKB/Swiss-Prot
    Q9NZU7
    Related
    ENSP00000288615.2, ENST00000351200.6
    Conserved Domains (1) summary
    PTZ00184
    Location:18 → 165
    PTZ00184; calmodulin; Provisional

  3. NM_031205.4 → NP_112482.1  calcium-binding protein 1 isoform 1

    See identical proteins and their annotated locations for NP_112482.1

    Status: REVIEWED

    Description
    Transcript Variant: This variant (1) has an alternate 5' sequence, as compared to variant 3. The encoded isoform 1 has a distinct and shorter N-terminus, as compared to isoform 3.
    Source sequence(s)
    AC069234, AF169149, BC030201, BM716422
    Consensus CDS
    CCDS9205.1
    UniProtKB/Swiss-Prot
    Q9NZU7
    Related
    ENSP00000288616.3, ENST00000288616.7
    Conserved Domains (2) summary
    PTZ00184
    Location:78 → 225
    PTZ00184; calmodulin; Provisional
    cd00051
    Location:163 → 226
    EFh; EF-hand, calcium binding motif; A diverse superfamily of calcium sensors and calcium signal modulators; most examples in this alignment model have 2 active canonical EF hands. Ca2+ binding induces a conformational change in the EF-hand motif, leading to ...

RefSeqs of Annotated Genomes: GCF_000001405.40-RS_2023_10

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

Reference GRCh38.p14 Primary Assembly

Genomic

  1. NC_000012.12 Reference GRCh38.p14 Primary Assembly

    Range
    120640626..120680866
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_017020235.2 → XP_016875724.1  calcium-binding protein 1 isoform X1

  2. XM_017020238.3 → XP_016875727.1  calcium-binding protein 1 isoform X3

  3. XM_017020239.3 → XP_016875728.1  calcium-binding protein 1 isoform X5

  4. XM_024449281.2 → XP_024305049.1  calcium-binding protein 1 isoform X4

    UniProtKB/TrEMBL
    C9J8G2
    Related
    ENSP00000398959.1, ENST00000453000.1
    Conserved Domains (1) summary
    cl25352
    Location:157 → 304
    EFh_PEF; The penta-EF hand (PEF) family

  5. XM_024449280.2 → XP_024305048.1  calcium-binding protein 1 isoform X2

    Conserved Domains (1) summary
    cl25352
    Location:157 → 298
    EFh_PEF; The penta-EF hand (PEF) family

Alternate T2T-CHM13v2.0

Genomic

  1. NC_060936.1 Alternate T2T-CHM13v2.0

    Range
    120629781..120669988
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_054373870.1 → XP_054229845.1  calcium-binding protein 1 isoform X1

  2. XM_054373872.1 → XP_054229847.1  calcium-binding protein 1 isoform X3

  3. XM_054373874.1 → XP_054229849.1  calcium-binding protein 1 isoform X5

  4. XM_054373873.1 → XP_054229848.1  calcium-binding protein 1 isoform X4

    UniProtKB/TrEMBL
    C9J8G2

  5. XM_054373871.1 → XP_054229846.1  calcium-binding protein 1 isoform X2

Nucleotide Protein
Heading Accession and Version
Protein Accession Links
GenPept Link UniProtKB Link
Q9NZU7.5 GenPept UniProtKB/Swiss-Prot:Q9NZU7

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