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GCA grancalcin [ Homo sapiens (human) ]

Gene ID: 25801, updated on 7-Dec-2018

Summary

Official Symbol
GCAprovided by HGNC
Official Full Name
grancalcinprovided by HGNC
Primary source
HGNC:HGNC:15990
See related
Ensembl:ENSG00000115271 MIM:607030
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
GCL
Summary
This gene encodes a calcium-binding protein that is abundant in neutrophils and macrophages. In the absence of divalent cation, this protein localizes to the cytosolic fraction; with magnesium alone, it partitions with the granule fraction; and in the presence of magnesium and calcium, it associates with both the granule and membrane fractions. Alternative splicing and use of alternative promoters results in multiple transcript variants. [provided by RefSeq, Aug 2016]
Expression
Broad expression in bone marrow (RPKM 47.3), appendix (RPKM 18.4) and 18 other tissues See more
Orthologs

Genomic context

See GCA in Genome Data Viewer
Location:
2q24.2
Exon count:
13
Annotation release Status Assembly Chr Location
109 current GRCh38.p12 (GCF_000001405.38) 2 NC_000002.12 (162318763..162377225)
105 previous assembly GRCh37.p13 (GCF_000001405.25) 2 NC_000002.11 (163200583..163236525)

Chromosome 2 - NC_000002.12Genomic Context describing neighboring genes Neighboring gene uncharacterized LOC105373724 Neighboring gene interferon induced with helicase C domain 1 Neighboring gene potassium voltage-gated channel subfamily H member 7 Neighboring gene RNA, 5S ribosomal pseudogene 109 Neighboring gene uncharacterized LOC101929570

Genomic regions, transcripts, and products

Expression

  • 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

GeneRIFs: Gene References Into FunctionsWhat's a GeneRIF?

Pathways from BioSystems

  • Immune System, organism-specific biosystem (from REACTOME)
    Immune System, organism-specific biosystemHumans are exposed to millions of potential pathogens daily, through contact, ingestion, and inhalation. Our ability to avoid infection depends on the adaptive immune system and during the first crit...
  • Innate Immune System, organism-specific biosystem (from REACTOME)
    Innate Immune System, organism-specific biosystemInnate immunity encompases the nonspecific part of immunity tha are part of an individual's natural biologic makeup
  • Neutrophil degranulation, organism-specific biosystem (from REACTOME)
    Neutrophil degranulation, organism-specific biosystemNeutrophils are the most abundant leukocytes (white blood cells), indispensable in defending the body against invading microorganisms. In response to infection, neutrophils leave the circulation and ...

Interactions

Products Interactant Other Gene Complex Source Pubs Description

General gene information

Markers

Homology

Gene Ontology Provided by GOA

Function Evidence Code Pubs
calcium ion binding IDA
Inferred from Direct Assay
more info
PubMed 
protein binding IPI
Inferred from Physical Interaction
more info
PubMed 
protein heterodimerization activity IPI
Inferred from Physical Interaction
more info
PubMed 
protein homodimerization activity IPI
Inferred from Physical Interaction
more info
PubMed 
Process Evidence Code Pubs
membrane fusion TAS
Traceable Author Statement
more info
PubMed 
neutrophil degranulation TAS
Traceable Author Statement
more info
 
Component Evidence Code Pubs
azurophil granule lumen TAS
Traceable Author Statement
more info
 
cytoplasm TAS
Traceable Author Statement
more info
PubMed 
cytosol IDA
Inferred from Direct Assay
more info
 
extracellular exosome HDA PubMed 
extracellular region TAS
Traceable Author Statement
more info
 
plasma membrane IDA
Inferred from Direct Assay
more info
 

General protein information

Preferred Names
grancalcin
Names
grancalcin, EF-hand calcium-binding protein
grancalcin, penta-EF-hand protein

NCBI Reference Sequences (RefSeq)

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.

mRNA and Protein(s)

  1. NM_001330265.1NP_001317194.1  grancalcin isoform a

    Status: REVIEWED

    Source sequence(s)
    AC010876
    Conserved Domains (2) summary
    pfam13499
    Location:140195
    EF-hand_7; EF-hand domain pair
    cl08302
    Location:79134
    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_001330266.1NP_001317195.1  grancalcin isoform a

    Status: REVIEWED

    Source sequence(s)
    AC010876
    Conserved Domains (2) summary
    pfam13499
    Location:140195
    EF-hand_7; EF-hand domain pair
    cl08302
    Location:79134
    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 ...
  3. NM_001330267.1NP_001317196.1  grancalcin isoform a

    Status: REVIEWED

    Source sequence(s)
    AC010876
    Conserved Domains (2) summary
    pfam13499
    Location:140195
    EF-hand_7; EF-hand domain pair
    cl08302
    Location:79134
    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 ...
  4. NM_001330268.1NP_001317197.1  grancalcin isoform c

    Status: REVIEWED

    Source sequence(s)
    AC010876
    Conserved Domains (2) summary
    pfam13499
    Location:151206
    EF-hand_7; EF-hand domain pair
    cl08302
    Location:90145
    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 ...
  5. NM_001330270.1NP_001317199.1  grancalcin isoform d

    Status: REVIEWED

    Source sequence(s)
    AC010876
    Consensus CDS
    CCDS82527.1
    UniProtKB/TrEMBL
    H7BXD5
    Conserved Domains (2) summary
    pfam13499
    Location:106161
    EF-hand_7; EF-hand domain pair
    cl08302
    Location:45100
    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 ...
  6. NM_001330271.1NP_001317200.1  grancalcin isoform d

    Status: REVIEWED

    Source sequence(s)
    AC010876, AK295413, BI760070
    Consensus CDS
    CCDS82527.1
    UniProtKB/TrEMBL
    B7Z322, H7BXD5
    Related
    ENSP00000233612.4, ENST00000233612.8
    Conserved Domains (2) summary
    pfam13499
    Location:106161
    EF-hand_7; EF-hand domain pair
    cl08302
    Location:45100
    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 ...
  7. NM_012198.5NP_036330.1  grancalcin isoform b

    See identical proteins and their annotated locations for NP_036330.1

    Status: REVIEWED

    Source sequence(s)
    AC010876, BC005214, M81637
    Consensus CDS
    CCDS2218.1
    UniProtKB/Swiss-Prot
    P28676
    Related
    ENSP00000394842.2, ENST00000437150.6
    Conserved Domains (1) summary
    cd16186
    Location:53217
    EFh_PEF_grancalcin; Penta-EF hand, calcium binding motifs, found in grancalcin

RefSeqs of Annotated Genomes: Homo sapiens Annotation Release 109

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

Reference GRCh38.p12 Primary Assembly

Genomic

  1. NC_000002.12 Reference GRCh38.p12 Primary Assembly

    Range
    162318763..162377225
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_006712398.4XP_006712461.1  grancalcin isoform X1

    Conserved Domains (2) summary
    pfam13499
    Location:151206
    EF-hand_7; EF-hand domain pair
    cl08302
    Location:90145
    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. XM_006712400.4XP_006712463.1  grancalcin isoform X2

    Conserved Domains (1) summary
    cl08302
    Location:79134
    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 ...
  3. XM_017003769.2XP_016859258.1  grancalcin isoform X6

    Related
    ENSP00000393218.1, ENST00000446271.5
    Conserved Domains (2) summary
    cd15897
    Location:79107
    EFh_PEF; EF-hand motif [structural motif]
    cl25352
    Location:79129
    EFh_PEF; The penta-EF hand (PEF) family
  4. XM_005246446.3XP_005246503.1  grancalcin isoform X3

    Conserved Domains (2) summary
    pfam13499
    Location:125180
    EF-hand_7; EF-hand domain pair
    cl08302
    Location:64119
    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 ...
  5. XM_017003767.1XP_016859256.1  grancalcin isoform X4

    Conserved Domains (2) summary
    pfam13499
    Location:106161
    EF-hand_7; EF-hand domain pair
    cl08302
    Location:45100
    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 ...
  6. XM_011510926.2XP_011509228.1  grancalcin isoform X4

    Conserved Domains (2) summary
    pfam13499
    Location:106161
    EF-hand_7; EF-hand domain pair
    cl08302
    Location:45100
    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 ...
  7. XM_011510928.2XP_011509230.1  grancalcin isoform X5

    Related
    ENSP00000408620.1, ENST00000414723.1
    Conserved Domains (1) summary
    cl08302
    Location:152
    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 ...
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