S100A4 Gene (Protein Coding)

S100 Calcium Binding Protein A4

GC01M153543
GIFtS:
44
The protein encoded by this gene is a member of the S100 family of proteins containing 2 EF-hand calcium-binding motifs. S100 proteins are localized in the cytoplasm and/or nucleus of a wide range of cells, and involved in the regulation of a number of cellular processes such as cell cycle progression and differentiation. S100 genes include at least 13 members which are located... See more...

Aliases for S100A4 Gene

Aliases for S100A4 Gene

  • S100 Calcium Binding Protein A4 2 3 5
  • S100 Calcium-Binding Protein A4 (Calcium Protein, Calvasculin, Metastasin, Murine Placental Homolog) 2 3
  • Placental Calcium-Binding Protein 3 4
  • Fibroblast-Specific Protein-1 2 3
  • Calcium Placental Protein 2 3
  • Murine Placental Homolog 2 3
  • Protein S100-A4 3 4
  • Metastasin 1 2 3
  • Protein Mts1 3 4
  • Calvasculin 2 4
  • PEL98 2 3
  • 18A2 2 3
  • CAPL 3 4
  • FSP1 2 3
  • MTS1 3 4
  • P9KA 2 3
  • 42A 2 3
  • Leukemia Multidrug Resistance Associated Protein 3
  • Malignant Transformation Suppression 1 3
  • S100 Calcium-Binding Protein A4 4
  • Metastasin 4
  • S100A4 5

External Ids for S100A4 Gene

Previous HGNC Symbols for S100A4 Gene

  • MTS1
  • CAPL

Previous GeneCards Identifiers for S100A4 Gene

  • GC01M151332
  • GC01M149298
  • GC01M150343
  • GC01M150784
  • GC01M150585
  • GC01M150330
  • GC01M151783
  • GC01M153517
  • GC01M124879
  • GC01M153518

Summaries for S100A4 Gene

Entrez Gene Summary for S100A4 Gene

  • The protein encoded by this gene is a member of the S100 family of proteins containing 2 EF-hand calcium-binding motifs. S100 proteins are localized in the cytoplasm and/or nucleus of a wide range of cells, and involved in the regulation of a number of cellular processes such as cell cycle progression and differentiation. S100 genes include at least 13 members which are located as a cluster on chromosome 1q21. This protein may function in motility, invasion, and tubulin polymerization. Chromosomal rearrangements and altered expression of this gene have been implicated in tumor metastasis. Multiple alternatively spliced variants, encoding the same protein, have been identified. [provided by RefSeq, Jul 2008]

GeneCards Summary for S100A4 Gene

S100A4 (S100 Calcium Binding Protein A4) is a Protein Coding gene. Diseases associated with S100A4 include Bile Duct Adenocarcinoma and Small Intestine Adenocarcinoma. Among its related pathways are Ca, cAMP and Lipid Signaling. Gene Ontology (GO) annotations related to this gene include identical protein binding. An important paralog of this gene is S100A2.

Gene Wiki entry for S100A4 Gene

Additional gene information for S100A4 Gene

No data available for CIViC Summary , UniProtKB/Swiss-Prot Summary , Tocris Summary , PharmGKB "VIP" Summary , Rfam classification and piRNA Summary for S100A4 Gene

Genomics for S100A4 Gene

GeneHancer (GH) Regulatory Elements Pubs

Download GeneHancer 2017 data
Promoters and enhancers for S100A4 Gene
- Elite GeneHancer and/or Elite GeneHancer-gene association Download GeneHancer data from 2017 publication | Request up-to-date GeneHancer data (full dataset)

GeneHancers around S100A4 on the GeneHancer Hub at the UCSC Golden Path

Cistromic (ChIP-Seq) regulation report from SPP (The Signaling Pathways Project) for S100A4

Top Transcription factor binding sites by QIAGEN in the S100A4 gene promoter:
  • AML1a
  • ATF-2
  • c-Jun

Genomic Locations for S100A4 Gene

Latest Assembly
chr1:153,543,613-153,550,136
(GRCh38/hg38)
Size:
6,524 bases
Orientation:
Minus strand

Previous Assembly
chr1:153,516,097-153,518,282
(GRCh37/hg19 by Entrez Gene)
Size:
2,186 bases
Orientation:
Minus strand

chr1:153,516,089-153,522,612
(GRCh37/hg19 by Ensembl)
Size:
6,524 bases
Orientation:
Minus strand

Genomic View for S100A4 Gene

Genes around S100A4 on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
S100A4 Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for S100A4 Gene
GeneLoc Logo Genomic Neighborhood • Exon Structure • Gene Density

RefSeq DNA sequence for S100A4 Gene

Proteins for S100A4 Gene

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  • Protein details for S100A4 Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    P26447-S10A4_HUMAN
    Recommended name:
    Protein S100-A4
    Protein Accession:
    P26447
    Secondary Accessions:
    • A8K7R8
    • D3DV46
    • Q6ICP8

    Protein attributes for S100A4 Gene

    Size:
    101 amino acids
    Molecular mass:
    11729 Da
    Quaternary structure:
    • Homodimer. Interacts with PPFIBP1 in a calcium-dependent mode.

    Three dimensional structures from OCA and Proteopedia for S100A4 Gene

neXtProt entry for S100A4 Gene

Protein Expression for S100A4 Gene

See protein expression from ProteomicsDB, MOPED, PaxDb, and MaxQB

Post-translational modifications for S100A4 Gene

  • Ubiquitination at Lys57
  • Modification sites at PhosphoSitePlus

Other Protein References for S100A4 Gene

ENSEMBL proteins:
REFSEQ proteins:

Antibodies for research

  • Abcam antibodies for S100A4

No data available for DME Specific Peptides for S100A4 Gene

Domains & Families for S100A4 Gene

Gene Families for S100A4 Gene

HGNC:
Human Protein Atlas (HPA):
  • Cancer-related genes
  • Plasma proteins
  • Predicted intracellular proteins

Protein Domains for S100A4 Gene

InterPro:
Blocks:
  • Calcium-binding protein, S-100/ICaBP type

Suggested Antigen Peptide Sequences for S100A4 Gene

GenScript: Design optimal peptide antigens:
  • S100 calcium-binding protein A4 (S10A4_HUMAN)

Graphical View of Domain Structure for InterPro Entry

P26447

UniProtKB/Swiss-Prot:

S10A4_HUMAN :
  • Belongs to the S-100 family.
Family:
  • Belongs to the S-100 family.
genes like me logo Genes that share domains with S100A4: view

Function for S100A4 Gene

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  6. Cell Lines for research

Molecular function for S100A4 Gene

GENATLAS Biochemistry:
S100 calcium binding protein A4,murine placental homolog,epidermal differentiation complex,possessing metastasis-inducing capabilities,involved in the regulation of cell cycle progression,modulating intercellular adhesion,and invasive and metastatic properties of cancer cells

Phenotypes From GWAS Catalog for S100A4 Gene

Gene Ontology (GO) - Molecular Function for S100A4 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0003723 RNA binding HDA 22658674
GO:0003779 actin binding IEA --
GO:0005509 calcium ion binding TAS,IBA 21873635
GO:0005515 protein binding IPI 14640694
GO:0042802 identical protein binding IPI 20421509
genes like me logo Genes that share ontologies with S100A4: view
genes like me logo Genes that share phenotypes with S100A4: view

Animal Models for S100A4 Gene

MGI Knock Outs for S100A4:

Animal Models for research

miRNA for S100A4 Gene

miRTarBase miRNAs that target S100A4

Inhibitory RNAs for research

  • Search GeneCopoeia for shRNA, lentivirus and/or AAV clone products for S100A4

No data available for Enzyme Numbers (IUBMB) , Human Phenotype Ontology , Transcription Factor Targets and HOMER Transcription for S100A4 Gene

Localization for S100A4 Gene

Subcellular locations from

COMPARTMENTS
Extracellular space Cytosol Plasma membrane Cytoskeleton Lysosome Endosome Peroxisome ER Golgi Apparatus Nucleus Mitochondrion 0 1 2 3 4 5 Confidence
COMPARTMENTS Subcellular localization image for S100A4 gene
Compartment Confidence
extracellular 5
nucleus 5
cytosol 4
cytoskeleton 3
plasma membrane 2
mitochondrion 2
endoplasmic reticulum 2
peroxisome 1
endosome 1
lysosome 1
golgi apparatus 1

Subcellular locations from the

Human Protein Atlas (HPA)
  • Plasma membrane (4)
See all subcellular structures

Gene Ontology (GO) - Cellular Components for S100A4 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005576 extracellular region HDA 27068509
GO:0005615 extracellular space HDA 22664934
GO:0005634 nucleus IBA,IDA 12118070
GO:0043005 neuron projection IEA --
GO:0048471 perinuclear region of cytoplasm IBA,IDA 15033494
genes like me logo Genes that share ontologies with S100A4: view

No data available for Subcellular locations from UniProtKB/Swiss-Prot for S100A4 Gene

Pathways & Interactions for S100A4 Gene

PathCards logo

SuperPathways for S100A4 Gene

SuperPathway Contained pathways
1 Ca, cAMP and Lipid Signaling
Ca, cAMP and Lipid Signaling
-
genes like me logo Genes that share pathways with S100A4: view

Pathways by source for S100A4 Gene

1 Cell Signaling Technology pathway for S100A4 Gene

SIGNOR curated interactions for S100A4 Gene

Is activated by:
Is inactivated by:

Gene Ontology (GO) - Biological Process for S100A4 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0001837 epithelial to mesenchymal transition TAS 14679171
GO:0043123 positive regulation of I-kappaB kinase/NF-kappaB signaling IDA 15033494
genes like me logo Genes that share ontologies with S100A4: view

Drugs & Compounds for S100A4 Gene

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(11) Drugs for S100A4 Gene - From: DrugBank, ClinicalTrials, HMDB, and Novoseek

Name Status Disease Links Group Role Mechanism of Action Clinical Trials
Trifluoperazine Approved, Investigational Pharma Target, inhibitor 7
Copper Approved, Investigational Pharma Target 276
Niclosamide Approved, Investigational, Vet_approved Pharma STAT3 inhibitor; also inhibits mTORC1 signaling 26
Calcium Nutra 6959
Anthelmintics Pharma 521

(6) Additional Compounds for S100A4 Gene - From: Novoseek

Name Synonyms Role CAS Number PubChem IDs PubMed IDs
genes like me logo Genes that share compounds with S100A4: view

Transcripts for S100A4 Gene

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mRNA/cDNA for S100A4 Gene

2 REFSEQ mRNAs :
9 NCBI additional mRNA sequence :
6 Ensembl transcripts including schematic representations, and UCSC links to gene/alias where relevant :

Inhibitory RNAs for research

  • Search GeneCopoeia for shRNA, lentivirus and/or AAV clone products for S100A4

Alternative Splicing Database (ASD) splice patterns (SP) for S100A4 Gene

ExUns: 1a · 1b · 1c ^ 2a · 2b · 2c ^ 3a · 3b ^ 4 ^ 5a · 5b · 5c · 5d · 5e · 5f
SP1: - - - -
SP2: - - - - -
SP3: - - - - - -
SP4: - - - - -
SP5: - - - -
SP6: - - -
SP7: -
SP8: -

Relevant External Links for S100A4 Gene

GeneLoc Exon Structure for
S100A4

Expression for S100A4 Gene

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  1. Primer products for research
  2. Gene Expression Assays for research

mRNA expression in normal human tissues from GTEx, Illumina, BioGPS, and SAGE for S100A4 Gene

mRNA expression in normal human tissues for S100A4 Gene
mRNA expression by BioGPS for S100A4 GenemRNA expression by GTEx for S100A4 Gene

mRNA expression in embryonic tissues and stem cells from LifeMap Discovery

mRNA differential expression in normal tissues according to GTEx for S100A4 Gene

This gene is overexpressed in Whole Blood (x17.6) and Artery - Aorta (x4.2).

Protein differential expression in normal tissues from HIPED for S100A4 Gene

This gene is overexpressed in Tlymphocyte (6.9), NK cells (6.8), Monocytes (6.7), and CD4 Tcells (6.1).

Integrated Proteomics: protein expression in normal tissues and cell lines from ProteomicsDB, MaxQB, and MOPED for S100A4 Gene



Protein tissue co-expression partners for S100A4 Gene

Transcriptomic regulation report from SPP (The Signaling Pathways Project) for S100A4

SOURCE GeneReport for Unigene cluster for S100A4 Gene:

Hs.654444

mRNA Expression by UniProt/SwissProt for S100A4 Gene:

P26447-S10A4_HUMAN
Tissue specificity: Ubiquitously expressed.

Evidence on tissue expression from TISSUES for S100A4 Gene

  • Liver(4.8)
  • Blood(4.7)
  • Heart(4.7)
  • Spleen(4.6)
  • Lung(3.5)
  • Bone marrow(3.4)
  • Muscle(3.4)
  • Intestine(3.3)
  • Eye(3.2)
  • Skin(3.2)
  • Lymph node(3.2)
  • Kidney(3.1)
  • Stomach(2.6)
  • Gall bladder(2.6)
  • Thyroid gland(2.5)
  • Nervous system(2.3)
  • Pancreas(2.2)
  • Adrenal gland(2.1)
genes like me logo Genes that share expression patterns with S100A4: view

Primer products for research

No data available for Phenotype-based relationships between genes and organs from Gene ORGANizer for S100A4 Gene

Orthologs for S100A4 Gene

This gene was present in the common ancestor of chordates.

Orthologs for S100A4 Gene

Organism Taxonomy Gene Similarity Type Details
Chimpanzee
(Pan troglodytes)
 Mammalia S100A4 29 30
  • 99.67 (n)
 OneToOne
Cow
(Bos Taurus)
 Mammalia S100A4 29 30
  • 91.42 (n)
 OneToOne
Dog
(Canis familiaris)
 Mammalia S100A4 29 30
  • 90.76 (n)
 OneToOne
Mouse
(Mus musculus)
 Mammalia S100a4 29 16 30
  • 89.44 (n)
 OneToOne
Rat
(Rattus norvegicus)
 Mammalia S100a4 29
  • 88.78 (n)
Oppossum
(Monodelphis domestica)
 Mammalia S100A4 30
  • 84 (a)
 OneToOne
Platypus
(Ornithorhynchus anatinus)
 Mammalia S100A4 30
  • 74 (a)
 OneToOne
Chicken
(Gallus gallus)
 Aves S100A4 29 30
  • 72.39 (n)
 OneToOne
Zebrafish
(Danio rerio)
 Actinopterygii icn 29
  • 60.92 (n)
Species where no ortholog for S100A4 was found in the sources mined by GeneCards:
  • A. gosspyii yeast (Eremothecium gossypii)
  • Actinobacteria (Mycobacterium tuberculosis)
  • African clawed frog (Xenopus laevis)
  • African malaria mosquito (Anopheles gambiae)
  • Alicante grape (Vitis vinifera)
  • Alpha proteobacteria (Wolbachia pipientis)
  • Amoeba (Dictyostelium discoideum)
  • Archea (Pyrococcus horikoshii)
  • Baker's yeast (Saccharomyces cerevisiae)
  • Barley (Hordeum vulgare)
  • Beta proteobacteria (Neisseria meningitidis)
  • Bread mold (Neurospora crassa)
  • Chromalveolata (Phytophthora infestans)
  • Common water flea (Daphnia pulex)
  • Corn (Zea mays)
  • E. coli (Escherichia coli)
  • Filamentous fungi (Aspergillus nidulans)
  • Firmicute Bacteria (Streptococcus pneumoniae)
  • Fission Yeast (Schizosaccharomyces pombe)
  • Fruit Fly (Drosophila melanogaster)
  • Green Algae (Chlamydomonas reinhardtii)
  • Honey Bee (Apis mellifera)
  • K. Lactis Yeast (Kluyveromyces lactis)
  • Lizard (Anolis carolinensis)
  • Loblloly Pine (Pinus taeda)
  • Malaria Parasite (Plasmodium falciparum)
  • Medicago Trunc (Medicago Truncatula)
  • Moss (Physcomitrella patens)
  • Orangutan (Pongo pygmaeus)
  • Pig (Sus scrofa)
  • Rainbow Trout (Oncorhynchus mykiss)
  • Rice (Oryza sativa)
  • Rice Blast Fungus (Magnaporthe grisea)
  • Schistosome Parasite (Schistosoma mansoni)
  • Sea Anemone (Nematostella vectensis)
  • Sea Vase (Ciona intestinalis)
  • Sea Squirt (Ciona savignyi)
  • Sea Urchin (Strongylocentrotus purpuratus)
  • Sorghum (Sorghum bicolor)
  • Soybean (Glycine max)
  • Stem Rust Fungus (Puccinia graminis)
  • Sugarcane (Saccharum officinarum)
  • Thale Cress (Arabidopsis thaliana)
  • Tomato (Lycopersicon esculentum)
  • Toxoplasmosis (Toxoplasma gondii)
  • Trichoplax (Trichoplax adhaerens)
  • Tropical Clawed Frog (Silurana tropicalis)
  • Wheat (Triticum aestivum)
  • Worm (Caenorhabditis elegans)

Evolution for S100A4 Gene

ENSEMBL:
Gene Tree for S100A4 (if available)
TreeFam:
Gene Tree for S100A4 (if available)
Aminode:
Evolutionary constrained regions (ECRs) for S100A4: view image
Alliance of Genome Resources:
Additional Orthologs for S100A4

Paralogs for S100A4 Gene

Paralogs for S100A4 Gene

(20) SIMAP similar genes for S100A4 Gene using alignment to 1 proteins:

  • S10A4_HUMAN
genes like me logo Genes that share paralogs with S100A4: view

Variants for S100A4 Gene

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Sequence variations, with clinical significance, from ClinVar and Humsavar, with links to dbSNP for S100A4 Gene

SNP ID Clinical significance and condition Chr 01 pos Variation AA Info Type
rs111468775 Benign: not provided 153,543,861(-) G/A
NM_002961.3(S100A4):c.204C>T (p.Asn68=) 		SYNONYMOUS
rs1803244 Benign: not provided 153,543,882(-) G/A
NM_002961.3(S100A4):c.183C>T (p.Asn61=) 		SYNONYMOUS
rs79910171 Benign: not provided 153,544,735(-) C/T
NM_002961.3(S100A4):c.60G>A (p.Ser20=) 		SYNONYMOUS
rs9003 Benign: not provided 153,543,831(-) G/A
NM_002961.3(S100A4):c.234C>T (p.Phe78=) 		SYNONYMOUS

dbSNP identifiers (rs#s) for variants without ClinVar clinical significance for S100A4 Gene

All consequence types are included: molecular consequences (e.g. missense, synonymous), and location-based (e.g. intron, upstream).

Structural Variations from Database of Genomic Variants (DGV) for S100A4 Gene

Variant ID Type Subtype PubMed ID
esv3587584 CNV gain 21293372
esv3587591 CNV gain 21293372
nsv1002705 CNV gain 25217958
nsv831603 CNV gain 17160897

Variation tolerance for S100A4 Gene

Residual Variation Intolerance Score: 45.3% of all genes are more intolerant (likely to be disease-causing)
Gene Damage Index Score: 0.26; 5.83% of all genes are more intolerant (likely to be disease-causing)

Additional Variant Information for S100A4 Gene

SNPedia medical, phenotypic, and genealogical associations of SNPs for
S100A4
Leiden Open Variation Database (LOVD)
S100A4

SNP Genotyping and Copy Number Assays for research

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot for S100A4 Gene

Disorders for S100A4 Gene

MalaCards: The human disease database

(20) MalaCards diseases for S100A4 Gene - From: COP and GCD

Disorder Aliases PubMed IDs
bile duct adenocarcinoma
small intestine adenocarcinoma
  • adenocarcinoma of small intestine
spastic paraplegia 3, autosomal dominant
  • spg3a
follicular adenoma
  • follicular adenoma of the thyroid gland
pleural tuberculosis
  • pearly disease
- elite association - COSMIC cancer census association via MalaCards

Additional Disease Information for S100A4

Human Genome Epidemiology Navigator
(HuGE)
Atlas
ATLAS of Genetics and Cytogenetics in Oncology and Haematology
Open Targets Platform
Open Targets Platform
genes like me logo Genes that share disorders with S100A4: view

No data available for UniProtKB/Swiss-Prot and Genatlas for S100A4 Gene

Publications for S100A4 Gene

  1. Phenothiazines inhibit S100A4 function by inducing protein oligomerization. (PMID: 20421509) Malashkevich VN … Bresnick AR (Proceedings of the National Academy of Sciences of the United States of America 2010) 3 22 25
  2. Solution structure of human Mts1 (S100A4) as determined by NMR spectroscopy. (PMID: 12379109) Vallely KM … Weber DJ (Biochemistry 2002) 3 4 22
  3. Liprin beta 1, a member of the family of LAR transmembrane tyrosine phosphatase-interacting proteins, is a new target for the metastasis-associated protein S100A4 (Mts1). (PMID: 11836260) Kriajevska M … Lukanidin E (The Journal of biological chemistry 2002) 3 4 22
  4. Calcyclin and calvasculin exist in human platelets. (PMID: 1482346) Tomida Y … Hidaka H (Biochemical and biophysical research communications 1992) 3 4 22
  5. Functional interaction between Smad3 and S100A4 (metastatin-1) for TGF-beta-mediated cancer cell invasiveness. (PMID: 20070253) Matsuura I … Chiang KN (The Biochemical journal 2010) 3 22

ExternalLinks

View latest publications for S100A4 gene in Mastermind

Products for S100A4 Gene

Sources for S100A4 Gene