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Aliases for SDF4 Gene

Aliases for SDF4 Gene

  • Stromal Cell Derived Factor 4 2 3 5
  • Cab45 3 4
  • SDF-4 3 4
  • Stromal Cell-Derived Factor 4 4
  • Calcium Binding Protein 2

External Ids for SDF4 Gene

Previous GeneCards Identifiers for SDF4 Gene

  • GC01M001181
  • GC01M001143
  • GC01M000423
  • GC01M001152

Summaries for SDF4 Gene

Entrez Gene Summary for SDF4 Gene

  • This gene encodes a stromal cell derived factor that is a member of the CREC protein family. The encoded protein contains six EF-hand motifs and calcium-binding motifs. This protein localizes to the Golgi lumen and may be involved in regulating calcium dependent cellular activities. [provided by RefSeq, Sep 2011]

GeneCards Summary for SDF4 Gene

SDF4 (Stromal Cell Derived Factor 4) is a Protein Coding gene. Diseases associated with SDF4 include bladder squamous cell carcinoma and myopathy, tubular aggregate, 1. GO annotations related to this gene include calcium ion binding and identical protein binding. An important paralog of this gene is CALU.

UniProtKB/Swiss-Prot for SDF4 Gene

  • May regulate calcium-dependent activities in the endoplasmic reticulum lumen or post-ER compartment.

  • Isoform 5 may be involved in the exocytosis of zymogens by pancreatic acini.

Gene Wiki entry for SDF4 Gene

No data available for Tocris Summary , PharmGKB "VIP" Summary , fRNAdb sequence ontologies and piRNA Summary for SDF4 Gene

Genomics for SDF4 Gene

Regulatory Elements for SDF4 Gene

Promoters for SDF4 Gene
Ensembl Regulatory Elements (ENSRs) TSS Distance (bp) Size (bp) Binding Sites for Transcription Factors within promoters

ENSRs around SDF4 on UCSC Golden Path with GeneCards custom track

Genomic Location for SDF4 Gene

Chromosome:
1
Start:
1,216,908 bp from pter
End:
1,232,067 bp from pter
Size:
15,160 bases
Orientation:
Minus strand

Genomic View for SDF4 Gene

Genes around SDF4 on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
SDF4 Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for SDF4 Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for SDF4 Gene

Proteins for SDF4 Gene

  • Protein details for SDF4 Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    Q9BRK5-CAB45_HUMAN
    Recommended name:
    45 kDa calcium-binding protein
    Protein Accession:
    Q9BRK5
    Secondary Accessions:
    • B1AME5
    • B1AME6
    • B2RDF1
    • B4DSM1
    • Q53G52
    • Q53HQ9
    • Q8NBQ3
    • Q96AA1
    • Q9NZP7
    • Q9UN53

    Protein attributes for SDF4 Gene

    Size:
    362 amino acids
    Molecular mass:
    41807 Da
    Quaternary structure:
    • Isoform 5 interacts with STXBP1; the interaction is enhanced in presence of calcium. Isoform 5 interacts with STX3.
    SequenceCaution:
    • Sequence=AAL75950.1; Type=Frameshift; Positions=Several; Evidence={ECO:0000305};

    Alternative splice isoforms for SDF4 Gene

neXtProt entry for SDF4 Gene

Proteomics data for SDF4 Gene at MOPED

Post-translational modifications for SDF4 Gene

  • Ubiquitination at Lys 85 and Lys 350
  • Glycosylation at Asn 40, Ser 108, Ser 343, Thr 347, Ser 349, and Ser 357
  • Modification sites at PhosphoSitePlus

Other Protein References for SDF4 Gene

Antibody Products

No data available for DME Specific Peptides for SDF4 Gene

Domains & Families for SDF4 Gene

Gene Families for SDF4 Gene

Protein Domains for SDF4 Gene

Suggested Antigen Peptide Sequences for SDF4 Gene

Graphical View of Domain Structure for InterPro Entry

Q9BRK5

UniProtKB/Swiss-Prot:

CAB45_HUMAN :
  • Binds calcium via its EF-hands (By similarity). Isoform 5 binds calcium.
  • Belongs to the CREC family.
Domain:
  • Binds calcium via its EF-hands (By similarity). Isoform 5 binds calcium.
  • Contains 6 EF-hand domains.
Family:
  • Belongs to the CREC family.
genes like me logo Genes that share domains with SDF4: view

Function for SDF4 Gene

Molecular function for SDF4 Gene

UniProtKB/Swiss-Prot Function:
May regulate calcium-dependent activities in the endoplasmic reticulum lumen or post-ER compartment.
UniProtKB/Swiss-Prot Function:
Isoform 5 may be involved in the exocytosis of zymogens by pancreatic acini.
genes like me logo Genes that share phenotypes with SDF4: view

Animal Model Products

No data available for Enzyme Numbers (IUBMB) , Gene Ontology (GO) - Molecular Function , Human Phenotype Ontology , Animal Models , Transcription Factor Targets and HOMER Transcription for SDF4 Gene

Localization for SDF4 Gene

Subcellular locations from UniProtKB/Swiss-Prot for SDF4 Gene

Isoform 1: Golgi apparatus lumen.
Isoform 5: Cytoplasm. Cell membrane. Cell projection, bleb. Note=Isoform 5 colocalizes with STX3 and STXBP1 isoform 2 at the plasma membrane and cell surface blebs. {ECO:0000269 PubMed:17442889}.

Subcellular locations from

COMPARTMENTS
Jensen Localization Image for SDF4 Gene COMPARTMENTS Subcellular localization image for SDF4 gene
Compartment Confidence
extracellular 5
golgi apparatus 5
plasma membrane 4
endoplasmic reticulum 3
endosome 3
cytoskeleton 2
cytosol 2
mitochondrion 2
nucleus 2
lysosome 1
vacuole 1

Gene Ontology (GO) - Cellular Components for SDF4 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005737 cytoplasm ISS 17442889
GO:0005796 Golgi lumen ISS --
GO:0016020 membrane IDA 19946888
GO:0032059 bleb IEA --
genes like me logo Genes that share ontologies with SDF4: view

Pathways & Interactions for SDF4 Gene

SuperPathways for SDF4 Gene

No Data Available

Interacting Proteins for SDF4 Gene

Gene Ontology (GO) - Biological Process for SDF4 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0021549 cerebellum development ISS 18355758
GO:0045444 fat cell differentiation ISS --
GO:0070625 zymogen granule exocytosis ISS 17442889
genes like me logo Genes that share ontologies with SDF4: view

No data available for Pathways by source and SIGNOR curated interactions for SDF4 Gene

Drugs & Compounds for SDF4 Gene

(1) Drugs for SDF4 Gene - From: HMDB

Name Status Disease Links Group Role Mechanism of Action Clinical Trials
calcium Nutra 0
genes like me logo Genes that share compounds with SDF4: view

Transcripts for SDF4 Gene

Unigene Clusters for SDF4 Gene

Stromal cell derived factor 4:
Representative Sequences:

Alternative Splicing Database (ASD) splice patterns (SP) for SDF4 Gene

ExUns: 1a · 1b · 1c ^ 2 ^ 3 ^ 4a · 4b ^ 5a · 5b ^ 6a · 6b · 6c ^ 7 ^ 8a · 8b · 8c · 8d
SP1: - -
SP2: - - -
SP3: - - - - -
SP4: - - - - - - -
SP5: - - - -
SP6: - - -
SP7:
SP8: - -
SP9: - -

Relevant External Links for SDF4 Gene

GeneLoc Exon Structure for
SDF4
ECgene alternative splicing isoforms for
SDF4

Expression for SDF4 Gene

mRNA expression in normal human tissues for SDF4 Gene

mRNA expression in embryonic tissues and stem cells from LifeMap Discovery

Protein differential expression in normal tissues from HIPED for SDF4 Gene

This gene is overexpressed in Amniocyte (18.9), Bone (11.1), and Vitreous humor (9.8).

Integrated Proteomics: protein expression in normal tissues and cell lines from ProteomicsDB, PaxDb, MOPED, and MaxQB for SDF4 Gene



SOURCE GeneReport for Unigene cluster for SDF4 Gene Hs.42806

mRNA Expression by UniProt/SwissProt for SDF4 Gene

Q9BRK5-CAB45_HUMAN
Tissue specificity: Ubiquitous. Isoform 5 is expressed in pancreas.
genes like me logo Genes that share expression patterns with SDF4: view

In Situ Assay Products

No data available for mRNA differential expression in normal tissues and Protein tissue co-expression partners for SDF4 Gene

Orthologs for SDF4 Gene

This gene was present in the common ancestor of animals.

Orthologs for SDF4 Gene

Organism Taxonomy Gene Similarity Type Details
cow
(Bos Taurus)
Mammalia SDF4 36
  • 83 (a)
OneToOne
SDF4 35
  • 84.6 (n)
  • 84.51 (a)
dog
(Canis familiaris)
Mammalia SDF4 35
  • 84.04 (n)
  • 86.76 (a)
SDF4 36
  • 87 (a)
OneToOne
mouse
(Mus musculus)
Mammalia Sdf4 16
Sdf4 36
  • 86 (a)
OneToOne
Sdf4 35
  • 83.01 (n)
  • 87.26 (a)
oppossum
(Monodelphis domestica)
Mammalia SDF4 36
  • 79 (a)
OneToOne
platypus
(Ornithorhynchus anatinus)
Mammalia SDF4 36
  • 69 (a)
OneToOne
rat
(Rattus norvegicus)
Mammalia Sdf4 35
  • 82.46 (n)
  • 86.7 (a)
chicken
(Gallus gallus)
Aves SDF4 35
  • 73.21 (n)
  • 80.97 (a)
SDF4 36
  • 78 (a)
OneToOne
African clawed frog
(Xenopus laevis)
Amphibia Xl.6490 35
tropical clawed frog
(Silurana tropicalis)
Amphibia sdf4 35
  • 70.23 (n)
  • 75.49 (a)
rainbow trout
(Oncorhynchus mykiss)
Actinopterygii Omy.10046 35
zebrafish
(Danio rerio)
Actinopterygii sdf4 36
  • 73 (a)
OneToOne
sdf4 35
  • 71.21 (n)
  • 75.07 (a)
wufb66d06 35
African malaria mosquito
(Anopheles gambiae)
Insecta AgaP_AGAP002810 35
  • 49.27 (n)
  • 38.25 (a)
fruit fly
(Drosophila melanogaster)
Insecta CG31475 36
  • 25 (a)
OneToOne
CG31475 35
  • 48.63 (n)
  • 35.69 (a)
worm
(Caenorhabditis elegans)
Secernentea C56C10.9 35
  • 43.94 (n)
  • 30.87 (a)
C56C10.9 36
  • 28 (a)
OneToOne
sea squirt
(Ciona savignyi)
Ascidiacea -- 36
  • 33 (a)
OneToOne
Species with no ortholog for SDF4:
  • A. gosspyii yeast (Ashbya gossypii)
  • Actinobacteria (Mycobacterium tuberculosis)
  • 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)
  • chimpanzee (Pan troglodytes)
  • 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)
  • 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)
  • rice (Oryza sativa)
  • rice blast fungus (Magnaporthe grisea)
  • schistosome parasite (Schistosoma mansoni)
  • sea anemone (Nematostella vectensis)
  • 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)
  • wheat (Triticum aestivum)

Evolution for SDF4 Gene

ENSEMBL:
Gene Tree for SDF4 (if available)
TreeFam:
Gene Tree for SDF4 (if available)

Paralogs for SDF4 Gene

Paralogs for SDF4 Gene

genes like me logo Genes that share paralogs with SDF4: view

Variants for SDF4 Gene

Sequence variations from dbSNP and Humsavar for SDF4 Gene

SNP ID Clin Chr 01 pos Sequence Context AA Info Type
VAR_035461 A colorectal cancer sample
rs12745364 - 1,228,646(+) CCTGT(C/T)GGCTA reference, missense
rs11721 -- 1,217,251(-) ATCGT(A/C/G/T)GCATC utr-variant-3-prime
rs1756271 -- 1,219,654(+) GCCCA(C/T)CCGGC intron-variant, utr-variant-3-prime
rs3813198 -- 1,222,946(-) GAGTG(C/T)GCTGT intron-variant

Structural Variations from Database of Genomic Variants (DGV) for SDF4 Gene

Variant ID Type Subtype PubMed ID
nsv10161 CNV Gain+Loss 18304495
nsv517709 CNV Gain+Loss 19592680
nsv428334 CNV Gain 18775914
dgv2n67 CNV Gain 20364138
nsv871547 CNV Loss 21882294
dgv10n71 CNV Loss 21882294
dgv11n71 CNV Loss 21882294
dgv12n71 CNV Loss 21882294
nsv470680 CNV Loss 18288195
dgv17n71 CNV Loss 21882294
nsv871553 CNV Loss 21882294
dgv19n71 CNV Loss 21882294
dgv20n71 CNV Loss 21882294
nsv870527 CNV Gain 21882294
nsv469848 CNV Gain 16826518
dgv21n71 CNV Loss 21882294
nsv871744 CNV Gain 21882294
nsv482937 CNV Loss 15286789
dgv22n71 CNV Loss 21882294
nsv871107 CNV Loss 21882294
dgv23n71 CNV Loss 21882294
nsv871427 CNV Loss 21882294
nsv871680 CNV Loss 21882294
dgv24n71 CNV Loss 21882294
nsv871329 CNV Gain 21882294
dgv25n71 CNV Loss 21882294
dgv26n71 CNV Loss 21882294
nsv871512 CNV Loss 21882294
dgv27n71 CNV Loss 21882294
nsv455661 CNV Loss 19166990
nsv871327 CNV Loss 21882294
nsv159887 CNV Loss 16902084
nsv870639 CNV Loss 21882294
nsv871666 CNV Gain+Loss 21882294
nsv871965 CNV Loss 21882294
esv2745030 CNV Deletion 23290073
esv2745141 CNV Deletion 23290073
esv2745252 CNV Deletion 23290073
nsv821698 CNV Gain 20364138

Variation tolerance for SDF4 Gene

Residual Variation Intolerance Score: 78.2% of all genes are more intolerant (likely to be disease-causing)
Gene Damage Index Score: 2.27; 40.68% of all genes are more intolerant (likely to be disease-causing)

Relevant External Links for SDF4 Gene

HapMap Linkage Disequilibrium report
SDF4

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot for SDF4 Gene

Disorders for SDF4 Gene

MalaCards: The human disease database

(2) MalaCards diseases for SDF4 Gene - From: DISEASES

Disorder Aliases PubMed IDs
bladder squamous cell carcinoma
  • epidermoid carcinoma of the urinary bladder
myopathy, tubular aggregate, 1
  • tubular aggregate myopathy
- elite association - COSMIC cancer census association via MalaCards
Search SDF4 in MalaCards View complete list of genes associated with diseases

Relevant External Links for SDF4

Genetic Association Database (GAD)
SDF4
Human Genome Epidemiology (HuGE) Navigator
SDF4
Atlas of Genetics and Cytogenetics in Oncology and Haematology:
SDF4
genes like me logo Genes that share disorders with SDF4: view

No data available for UniProtKB/Swiss-Prot and Genatlas for SDF4 Gene

Publications for SDF4 Gene

  1. Sequence of a human cDNA encoding Cab45, a Ca2+-binding protein with six EF-hand motifs. (PMID: 9254016) Koivu T. … Olkkonen V.M. (DNA Seq. 1997) 2 3 4 67
  2. Cab45, a novel (Ca2+)-binding protein localized to the Golgi lumen. (PMID: 8609160) Scherer P.E. … Lodish H.F. (J. Cell Biol. 1996) 2 3
  3. ABCE1 is a highly conserved RNA silencing suppressor. (PMID: 25659154) KAorblane K. … Sarmiento C. (PLoS ONE 2015) 3
  4. Integrative analysis of kinase networks in TRAIL-induced apoptosis provides a source of potential targets for combination therapy. (PMID: 25852190) So J. … Colwill K. (Sci Signal 2015) 3
  5. The BioPlex Network: A Systematic Exploration of the Human Interactome. (PMID: 26186194) Huttlin E.L. … Gygi S.P. (Cell 2015) 3

Products for SDF4 Gene

Sources for SDF4 Gene

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