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Aliases for COL4A3 Gene

Aliases for COL4A3 Gene

  • Collagen, Type IV, Alpha 3 (Goodpasture Antigen) 2 3
  • Tumstatin 2 3
  • Collagen IV, Alpha-3 Polypeptide 3
  • Collagen Alpha-3(IV) Chain 3
  • Goodpasture Antigen 4

External Ids for COL4A3 Gene

Summaries for COL4A3 Gene

Entrez Gene Summary for COL4A3 Gene

  • Type IV collagen, the major structural component of basement membranes, is a multimeric protein composed of 3 alpha subunits. These subunits are encoded by 6 different genes, alpha 1 through alpha 6, each of which can form a triple helix structure with 2 other subunits to form type IV collagen. This gene encodes alpha 3. In the Goodpasture syndrome, autoantibodies bind to the collagen molecules in the basement membranes of alveoli and glomeruli. The epitopes that elicit these autoantibodies are localized largely to the non-collagenous C-terminal domain of the protein. A specific kinase phosphorylates amino acids in this same C-terminal region and the expression of this kinase is upregulated during pathogenesis. This gene is also linked to an autosomal recessive form of Alport syndrome. The mutations contributing to this syndrome are also located within the exons that encode this C-terminal region. Like the other members of the type IV collagen gene family, this gene is organized in a head-to-head conformation with another type IV collagen gene so that each gene pair shares a common promoter. [provided by RefSeq, Jun 2010]

GeneCards Summary for COL4A3 Gene

COL4A3 (Collagen, Type IV, Alpha 3 (Goodpasture Antigen)) is a Protein Coding gene. Diseases associated with COL4A3 include cerebral arteritis and alport syndrome, autosomal dominant. Among its related pathways are PI3K-Akt signaling pathway and Signaling by FGFR. GO annotations related to this gene include structural molecule activity and extracellular matrix structural constituent. An important paralog of this gene is COL3A1.

UniProtKB/Swiss-Prot for COL4A3 Gene

  • Type IV collagen is the major structural component of glomerular basement membranes (GBM), forming a chicken-wire meshwork together with laminins, proteoglycans and entactin/nidogen

  • Tumstatin, a cleavage fragment corresponding to the collagen alpha 3(IV) NC1 domain, possesses both anti-angiogenic and anti-tumor cell activity; these two anti-tumor properties may be regulated via RGD-independent ITGB3-mediated mechanisms

Gene Wiki entry for COL4A3 Gene

No data available for Tocris Summary , PharmGKB "VIP" Summary , fRNAdb sequence ontologies and piRNA Summary for COL4A3 Gene

Genomics for COL4A3 Gene

Genomic Location for COL4A3 Gene

Start:
227,164,565 bp from pter
End:
227,314,792 bp from pter
Size:
150,228 bases
Orientation:
Plus strand

Genomic View for COL4A3 Gene

UCSC Golden Path with GeneCards custom track
Cytogenetic band:
Genomic Location for COL4A3 Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for COL4A3 Gene

Regulatory Elements for COL4A3 Gene

Proteins for COL4A3 Gene

  • Protein details for COL4A3 Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    Q01955-CO4A3_HUMAN
    Recommended name:
    Collagen alpha-3(IV) chain
    Protein Accession:
    Q01955
    Secondary Accessions:
    • Q53QQ1
    • Q53R14
    • Q53RW8
    • Q9BQT2
    • Q9NYC4
    • Q9UDJ9
    • Q9UDK9
    • Q9UDL0
    • Q9UDL1

    Protein attributes for COL4A3 Gene

    Size:
    1670 amino acids
    Molecular mass:
    161813 Da
    Quaternary structure:
    • There are six type IV collagen isoforms, alpha 1(IV)-alpha 6(IV), each of which can form a triple helix structure with 2 other chains to generate type IV collagen network. The alpha 3(IV) chain forms a triple helical protomer with alpha 4(IV) and alpha 5(IV); this triple helical structure dimerizes through NC1-NC1 domain interactions such that the alpha 3(IV), alpha 4(IV) and alpha 5(IV) chains of one protomer connect with the alpha 5(IV), alpha 4(IV) and alpha 3(IV) chains of the opposite promoter, respectively. Interacts with COL4A3BP AND ITGB3. Associates with LAMB2 at the neuromuscular junction and in GBM (By similarity).
    Miscellaneous:
    • The epitopes recognized by the Goodpasture autoantibodies are sequestered within the NC1 hexamer of the type IV collagen network

    Alternative splice isoforms for COL4A3 Gene

    UniProtKB/Swiss-Prot:

neXtProt entry for COL4A3 Gene

Proteomics data for COL4A3 Gene at MOPED

Post-translational modifications for COL4A3 Gene

  • Isoform 2 contains an additional N-linked glycosylation site
  • Phosphorylated by the Goodpasture antigen-binding protein/COL4A3BP.
  • Prolines at the third position of the tripeptide repeating unit (G-X-Y) are hydroxylated in some or all of the chains
  • The trimeric structure of the NC1 domains is stabilized by covalent bonds between Lys and Met residues.
  • Type IV collagens contain numerous cysteine residues which are involved in inter- and intramolecular disulfide bonding. 12 of these, located in the NC1 domain, are conserved in all known type IV collagens
  • Modification sites at PhosphoSitePlus
  • Ubiquitination at Lys1414
  • Glycosylation at Asn253

Other Protein References for COL4A3 Gene

ENSEMBL proteins:
Reactome Protein details:
REFSEQ proteins:

No data available for DME Specific Peptides for COL4A3 Gene

Domains for COL4A3 Gene

Gene Families for COL4A3 Gene

HGNC:

UniProtKB/Swiss-Prot:

CO4A3_HUMAN
Domain:
  • Alpha chains of type IV collagen have a non-collagenous domain (NC1) at their C-terminus, frequent interruptions of the G-X-Y repeats in the long central triple-helical domain (which may cause flexibility in the triple helix), and a short N-terminal triple-helical 7S domain:
    • Q01955
  • Contains 1 collagen IV NC1 (C-terminal non-collagenous) domain.:
    • Q01955
Family:
  • Belongs to the type IV collagen family.:
    • Q01955
genes like me logo Genes that share domains with COL4A3: view

Function for COL4A3 Gene

Molecular function for COL4A3 Gene

GENATLAS Biochemistry: collagen type IV,alpha 3,glomerular basement membrane,Bowman capsule,distal TBM,neuromuscular junction,expressed in the dermoepidermal junction during fetal skin development
UniProtKB/Swiss-Prot Function: Type IV collagen is the major structural component of glomerular basement membranes (GBM), forming a chicken-wire meshwork together with laminins, proteoglycans and entactin/nidogen
UniProtKB/Swiss-Prot Function: Tumstatin, a cleavage fragment corresponding to the collagen alpha 3(IV) NC1 domain, possesses both anti-angiogenic and anti-tumor cell activity; these two anti-tumor properties may be regulated via RGD-independent ITGB3-mediated mechanisms

Gene Ontology (GO) - Molecular Function for COL4A3 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005178 integrin binding TAS 10766752
GO:0005198 structural molecule activity NAS 3025878
GO:0005201 extracellular matrix structural constituent IEA --
GO:0005515 protein binding IPI 10212244
GO:0008191 metalloendopeptidase inhibitor activity NAS 10766752
genes like me logo Genes that share ontologies with COL4A3: view
genes like me logo Genes that share phenotypes with COL4A3: view

Animal Models for COL4A3 Gene

MGI Knock Outs for COL4A3:

miRNA for COL4A3 Gene

miRTarBase miRNAs that target COL4A3

No data available for Enzyme Numbers (IUBMB) , Transcription Factor Targeting and HOMER Transcription for COL4A3 Gene

Localization for COL4A3 Gene

Subcellular locations from UniProtKB/Swiss-Prot for COL4A3 Gene

Secreted, extracellular space, extracellular matrix, basement membrane. Note=Colocalizes with COL4A4 and COL4A5 in GBM, tubular basement membrane (TBM) and synaptic basal lamina (BL). {ECO:0000250}.

Subcellular locations from

COMPARTMENTS
Jensen Localization Image for COL4A3 Gene COMPARTMENTS Subcellular localization image for COL4A3 gene
Compartment Confidence
extracellular 5
endoplasmic reticulum 4
nucleus 3
cytosol 1
mitochondrion 1
plasma membrane 1

Gene Ontology (GO) - Cellular Components for COL4A3 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005576 extracellular region TAS --
GO:0005581 collagen trimer --
GO:0005587 collagen type IV trimer IDA 10766752
GO:0005604 basement membrane IDA 10766752
GO:0005788 endoplasmic reticulum lumen TAS --
genes like me logo Genes that share ontologies with COL4A3: view

Pathways for COL4A3 Gene

genes like me logo Genes that share pathways with COL4A3: view

Gene Ontology (GO) - Biological Process for COL4A3 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0006919 activation of cysteine-type endopeptidase activity involved in apoptotic process IDA 10766752
GO:0007155 cell adhesion IEA --
GO:0007166 cell surface receptor signaling pathway NAS 10766752
GO:0007411 axon guidance TAS --
GO:0007605 sensory perception of sound TAS 7987396
genes like me logo Genes that share ontologies with COL4A3: view

Compounds for COL4A3 Gene

(4) Novoseek inferred chemical compound relationships for COL4A3 Gene

Compound -log(P) Hits PubMed IDs
arresten 87.9 3
vegf 33.5 3
phosphatidylinositol 0 2
cyclosporin a 0 1
genes like me logo Genes that share compounds with COL4A3: view

Transcripts for COL4A3 Gene

Unigene Clusters for COL4A3 Gene

Collagen, type IV, alpha 3 (Goodpasture antigen):
Representative Sequences:

Alternative Splicing Database (ASD) splice patterns (SP) for COL4A3 Gene

No ASD Table

Relevant External Links for COL4A3 Gene

GeneLoc Exon Structure for
COL4A3
ECgene alternative splicing isoforms for
COL4A3

Expression for COL4A3 Gene

mRNA expression in normal human tissues for COL4A3 Gene

mRNA expression in embryonic tissues and stem cells from LifeMap Discovery

mRNA differential expression in normal tissues according to GTEx for COL4A3 Gene

This gene is overexpressed in Kidney - Cortex (8.1), Muscle - Skeletal (6.1), and Thyroid (4.8).

Integrated Proteomics: protein expression from ProteomicsDB, PaxDb, MOPED, and MaxQB for COL4A3 Gene

SOURCE GeneReport for Unigene cluster for COL4A3 Gene Hs.570065

mRNA Expression by UniProt/SwissProt for COL4A3 Gene

Q01955-CO4A3_HUMAN
Tissue specificity: Alpha 3 and alpha 4 type IV collagens are colocalized and present in kidney, eye, basement membranes of lens capsule, cochlea, lung, skeletal muscle, aorta, synaptic fibers, fetal kidney and fetal lung. PubMed:8083201 reports similar levels of expression of alpha 3 and alpha 4 type IV collagens in kidney, but PubMed:7523402 reports that in kidney levels of alpha 3 type IV collagen are significantly lower than those of alpha 4 type IV collagen. According to PubMed:8083201, alpha 3 type IV collagen is not detected in heart, brain, placenta, liver, pancreas, extrasynaptic muscle fibers, endoneurial and perineurial nerves, fetal brain, fetal heart and fetal liver. According to PubMed:7523402, alpha 3 type IV collagen is strongly expressed in pancreas, neuroretina and calvaria and not expressed in adrenal, ileum and skin. Isoform 1 and isoform 3 are strongly expressed in kidney, lung, suprarenal capsule, muscle and spleen, in each of these tissues isoform 1 is more abundant than isoform 3. Isoform 1 and isoform 3 are expressed at low levels in artery, fat, pericardium and peripherical nerve, but not in placenta, mesangium, skin, pleura and cultured umbilical endothelial cells.
genes like me logo Genes that share expressions with COL4A3: view

Orthologs for COL4A3 Gene

This gene was present in the common ancestor of animals.

Orthologs for COL4A3 Gene

Organism Taxonomy Gene Similarity Type Details
chimpanzee
(Pan troglodytes)
Mammalia COL4A3 36
  • 99.2 (n)
  • 98.8 (a)
COL4A3 37
  • 94 (a)
OneToOne
cow
(Bos Taurus)
Mammalia COL4A3 36
  • 85.25 (n)
  • 82.13 (a)
COL4A3 37
  • 82 (a)
OneToOne
dog
(Canis familiaris)
Mammalia COL4A3 36
  • 86.64 (n)
  • 83.24 (a)
COL4A3 37
  • 82 (a)
OneToOne
mouse
(Mus musculus)
Mammalia Col4a3 36
  • 81.49 (n)
  • 78.9 (a)
Col4a3 16
Col4a3 37
  • 79 (a)
OneToOne
oppossum
(Monodelphis domestica)
Mammalia COL4A3 37
  • 72 (a)
OneToOne
platypus
(Ornithorhynchus anatinus)
Mammalia COL4A3 37
  • 82 (a)
OneToOne
rat
(Rattus norvegicus)
Mammalia Col4a3 36
  • 80.98 (n)
  • 77.28 (a)
chicken
(Gallus gallus)
Aves COL4A3 36
  • 61.63 (n)
  • 59.79 (a)
COL4A3 37
  • 59 (a)
OneToOne
lizard
(Anolis carolinensis)
Reptilia COL4A3 37
  • 58 (a)
OneToOne
zebrafish
(Danio rerio)
Actinopterygii col4a3 37
  • 45 (a)
OneToOne
fruit fly
(Drosophila melanogaster)
Insecta vkg 37
  • 35 (a)
OneToMany
worm
(Caenorhabditis elegans)
Secernentea emb-9 37
  • 45 (a)
ManyToMany
let-2 37
  • 45 (a)
ManyToMany
emb-9 38
  • 38 (a)
let-2 38
  • 56 (a)
sea squirt
(Ciona savignyi)
Ascidiacea CSA.10972 37
  • 42 (a)
ManyToMany
CSA.6298 37
  • 42 (a)
ManyToMany
Species with no ortholog for COL4A3:
  • A. gosspyii yeast (Ashbya 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)
  • green algae (Chlamydomonas reinhardtii)
  • honey bee (Apis mellifera)
  • K. lactis yeast (Kluyveromyces lactis)
  • 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 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)

Evolution for COL4A3 Gene

ENSEMBL:
Gene Tree for COL4A3 (if available)
TreeFam:
Gene Tree for COL4A3 (if available)

Paralogs for COL4A3 Gene

Selected SIMAP similar genes for COL4A3 Gene using alignment to 3 proteins:

genes like me logo Genes that share paralogs with COL4A3: view

Variants for COL4A3 Gene

Sequence variations from dbSNP and Humsavar for COL4A3 Gene

SNP ID Clin Chr 02 pos Sequence Context AA Info Type MAF
rs1950134 -- 227,198,236(-) AATGG(C/T)ACGAG intron-variant
rs1950135 -- 227,198,074(-) GGAAG(A/C)GTCAA intron-variant
rs2091749 -- 227,199,638(-) GGGTT(A/G)TGGAC intron-variant
rs2204861 -- 227,200,566(-) CACTA(G/T)AAACA intron-variant
rs2204862 -- 227,187,884(+) TCCAG(A/G)GGGAA intron-variant

Structural Variations from Database of Genomic Variants (DGV) for COL4A3 Gene

Variant ID Type Subtype PubMed ID
esv2721549 CNV Deletion 23290073
esv2721551 CNV Deletion 23290073
esv2721552 CNV Deletion 23290073
esv2721553 CNV Deletion 23290073
esv1344671 CNV Deletion 17803354
esv1431099 CNV Insertion 17803354
esv1219477 CNV Insertion 17803354
nsv521800 CNV Loss 19592680

Relevant External Links for COL4A3 Gene

HapMap Linkage Disequilibrium report
COL4A3
Human Gene Mutation Database (HGMD)
COL4A3

Disorders for COL4A3 Gene

(3) OMIM Diseases for COL4A3 Gene (120070)

UniProtKB/Swiss-Prot

CO4A3_HUMAN
  • Note=Autoantibodies against the NC1 domain of alpha 3(IV) are found in Goodpasture syndrome, an autoimmune disease of lung and kidney.
  • Alport syndrome, autosomal recessive (APSAR) [MIM:203780]: A syndrome characterized by progressive glomerulonephritis, glomerular basement membrane defects, renal failure, sensorineural deafness and specific eye abnormalities (lenticonous and macular flecks). The disorder shows considerable heterogeneity in that families differ in the age of end-stage renal disease and the occurrence of deafness. {ECO:0000269 PubMed:11134255, ECO:0000269 PubMed:15954103}. Note=The disease is caused by mutations affecting the gene represented in this entry.
  • Hematuria, benign familial (BFH) [MIM:141200]: An autosomal dominant condition characterized by non-progressive isolated microscopic hematuria that does not result in renal failure. It is characterized pathologically by thinning of the glomerular basement membrane. {ECO:0000269 PubMed:11961012}. Note=The disease is caused by mutations affecting the gene represented in this entry.
  • Alport syndrome, autosomal dominant (APSAD) [MIM:104200]: A syndrome characterized by progressive glomerulonephritis, glomerular basement membrane defects, renal failure, sensorineural deafness and specific eye abnormalities (lenticonous and macular flecks). The disorder shows considerable heterogeneity in that families differ in the age of end-stage renal disease and the occurrence of deafness. {ECO:0000269 PubMed:11044206, ECO:0000269 PubMed:11134255}. Note=The disease is caused by mutations affecting the gene represented in this entry.

(17) Novoseek inferred disease relationships for COL4A3 Gene

Disease -log(P) Hits PubMed IDs
alport syndrome, autosomal recessive 98.3 16
hematuria benign familial 96 7
alports syndrome 95.7 35
alport syndrome, autosomal dominant 94.7 3
alport syndrome, x-linked 91.1 4

Relevant External Links for COL4A3

GeneTests
COL4A3
GeneReviews
COL4A3
Genetic Association Database (GAD)
COL4A3
Human Genome Epidemiology (HuGE) Navigator
COL4A3
genes like me logo Genes that share disorders with COL4A3: view

Publications for COL4A3 Gene

  1. Molecular cloning of the human Goodpasture antigen demonstrates it to be the alpha 3 chain of type IV collagen. (PMID: 1737849) Turner N. … Pusey C.D. (J. Clin. Invest. 1992) 2 3 4 23
  2. Sequence and localization of a partial cDNA encoding the human alpha 3 chain of type IV collagen. (PMID: 1882840) Morrison K.E. … Reeders S.T. (Am. J. Hum. Genet. 1991) 3 4 23
  3. Two genes, COL4A3 and COL4A4 coding for the human alpha3(IV) and alpha4(IV) collagen chains are arranged head-to-head on chromosome 2q36. (PMID: 9537506) Momota R. … Ninomiya Y. (FEBS Lett. 1998) 3 4 23
  4. Mutations in the type IV collagen alpha 3 (COL4A3) gene in autosomal recessive Alport syndrome. (PMID: 7987301) Lemmink H.H. … Smeets H.J.M. (Hum. Mol. Genet. 1994) 3 4 23
  5. Characterization of a novel type of serine/threonine kinase that specifically phosphorylates the human goodpasture antigen. (PMID: 10212244) Raya A. … Saus J. (J. Biol. Chem. 1999) 3 4 23

Products for COL4A3 Gene

Sources for COL4A3 Gene

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