CDH5 Gene (Protein Coding)

Cadherin 5

GC16P066366
GIFtS:
49
This gene encodes a classical cadherin of the cadherin superfamily. The encoded preproprotein is proteolytically processed to generate the mature glycoprotein. This calcium-dependent cell-cell adhesion molecule is comprised of five extracellular cadherin repeats, a transmembrane region and a highly conserved cytoplasmic tail. Functioning as a classical cadherin by imparting to ... See more...

Aliases for CDH5 Gene

Aliases for CDH5 Gene

  • Cadherin 5 2 3 5
  • VE-Cadherin 2 3 4
  • Cadherin 5, Type 2, VE-Cadherin (Vascular Epithelium) 2 3
  • Cadherin 5, Type 2 (Vascular Endothelium) 2 3
  • Vascular Endothelial Cadherin 3 4
  • 7B4 Antigen 3 4
  • Cadherin-5 3 4
  • Endothelial-Specific Cadherin 3
  • Cd144 Antigen 3
  • CD144 Antigen 4
  • CD144 3
  • 7B4 3

External Ids for CDH5 Gene

Previous GeneCards Identifiers for CDH5 Gene

  • GC16P056984
  • GC16P066658
  • GC16P066136
  • GC16P066176
  • GC16P064958
  • GC16P066400
  • GC16P052277

Summaries for CDH5 Gene

Entrez Gene Summary for CDH5 Gene

  • This gene encodes a classical cadherin of the cadherin superfamily. The encoded preproprotein is proteolytically processed to generate the mature glycoprotein. This calcium-dependent cell-cell adhesion molecule is comprised of five extracellular cadherin repeats, a transmembrane region and a highly conserved cytoplasmic tail. Functioning as a classical cadherin by imparting to cells the ability to adhere in a homophilic manner, this protein plays a role in endothelial adherens junction assembly and maintenance. This gene is located in a gene cluster in a region on the long arm of chromosome 16 that is involved in loss of heterozygosity events in breast and prostate cancer. [provided by RefSeq, Nov 2015]

GeneCards Summary for CDH5 Gene

CDH5 (Cadherin 5) is a Protein Coding gene. Diseases associated with CDH5 include Periapical Granuloma and Epithelioid Sarcoma. Among its related pathways are Cell junction organization and CD28 co-stimulation. Gene Ontology (GO) annotations related to this gene include calcium ion binding and ion channel binding. An important paralog of this gene is CDH20.

UniProtKB/Swiss-Prot Summary for CDH5 Gene

  • Cadherins are calcium-dependent cell adhesion proteins (By similarity). They preferentially interact with themselves in a homophilic manner in connecting cells; cadherins may thus contribute to the sorting of heterogeneous cell types (PubMed:21269602). This cadherin may play a important role in endothelial cell biology through control of the cohesion and organization of the intercellular junctions (By similarity). It associates with alpha-catenin forming a link to the cytoskeleton (PubMed:10861224). Acts in concert with KRIT1 and MPP5 to establish and maintain correct endothelial cell polarity and vascular lumen (By similarity). These effects are mediated by recruitment and activation of the Par polarity complex and RAP1B (PubMed:20332120). Required for activation of PRKCZ and for the localization of phosphorylated PRKCZ, PARD3, TIAM1 and RAP1B to the cell junction (PubMed:20332120).

Gene Wiki entry for CDH5 Gene

Additional gene information for CDH5 Gene

No data available for CIViC Summary , Tocris Summary , PharmGKB "VIP" Summary , Rfam classification and piRNA Summary for CDH5 Gene

Genomics for CDH5 Gene

GeneHancer (GH) Regulatory Elements for CDH5 Gene

Promoters and enhancers for CDH5 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 CDH5 on UCSC Golden Path with GeneCards custom track

Top Transcription factor binding sites by QIAGEN in the CDH5 gene promoter:
  • AML1a
  • AP-1
  • ATF-2
  • c-Jun

Genomic Locations for CDH5 Gene

Genomic Locations for CDH5 Gene
chr16:66,366,622-66,404,786
(GRCh38/hg38)
Size:
38,165 bases
Orientation:
Plus strand
chr16:66,400,525-66,438,689
(GRCh37/hg19)
Size:
38,165 bases
Orientation:
Plus strand

Genomic View for CDH5 Gene

Genes around CDH5 on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
CDH5 Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for CDH5 Gene
GeneLoc Logo Genomic Neighborhood • Exon Structure • Gene Density

RefSeq DNA sequence for CDH5 Gene

Proteins for CDH5 Gene

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  • Protein details for CDH5 Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    P33151-CADH5_HUMAN
    Recommended name:
    Cadherin-5
    Protein Accession:
    P33151
    Secondary Accessions:
    • Q4VAI5
    • Q4VAI6

    Protein attributes for CDH5 Gene

    Size:
    784 amino acids
    Molecular mass:
    87528 Da
    Quaternary structure:
    • Interacts (via cadherin 5 domain) with PTPRB (By similarity). Interacts with TRPC4 (PubMed:19996314). Interacts with KRIT1 (PubMed:20332120). Interacts with PARD3 (By similarity). Interacts with RTN4 (isoform B) (PubMed:21183689). Interacts with MPP5; the interaction promotes MPP5 localization to cell junctions and is required for CDH5-mediated vascular lumen formation and endothelial cell (PubMed:27466317).

    Alternative splice isoforms for CDH5 Gene

    UniProtKB/Swiss-Prot:

neXtProt entry for CDH5 Gene

Protein Expression for CDH5 Gene

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

Post-translational modifications for CDH5 Gene

  • Phosphorylated on tyrosine residues by KDR/VEGFR-2. Dephosphorylated by PTPRB (By similarity).
  • O-glycosylated.
  • Glycosylation at Asn61, Asn112, Asn157, Asn362, Asn523, Asn535, and Asn442
  • Modification sites at PhosphoSitePlus
  • Glycosylation from GlyConnect
    • CADH5_HUMAN (617)

Other Protein References for CDH5 Gene

ENSEMBL proteins:
REFSEQ proteins:

Antibody Products

No data available for DME Specific Peptides for CDH5 Gene

Domains & Families for CDH5 Gene

Gene Families for CDH5 Gene

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

Protein Domains for CDH5 Gene

Blocks:
InterPro:
ProtoNet:

Suggested Antigen Peptide Sequences for CDH5 Gene

GenScript: Design optimal peptide antigens:
  • cDNA FLJ51088, highly similar to Cadherin-5 (B4DTR2_HUMAN)
  • Vascular endothelial cadherin (CADH5_HUMAN)
  • CDH5 protein (Q4VAI4_HUMAN)
  • CDH5 protein (Q4VAI5_HUMAN)
  • CDH5 protein (Q4VAI6_HUMAN)

Graphical View of Domain Structure for InterPro Entry

P33151

UniProtKB/Swiss-Prot:

CADH5_HUMAN :
  • Three calcium ions are usually bound at the interface of each cadherin domain and rigidify the connections, imparting a strong curvature to the full-length ectodomain.
Domain:
  • Three calcium ions are usually bound at the interface of each cadherin domain and rigidify the connections, imparting a strong curvature to the full-length ectodomain.
genes like me logo Genes that share domains with CDH5: view

Function for CDH5 Gene

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Molecular function for CDH5 Gene

UniProtKB/Swiss-Prot Function:
Cadherins are calcium-dependent cell adhesion proteins (By similarity). They preferentially interact with themselves in a homophilic manner in connecting cells; cadherins may thus contribute to the sorting of heterogeneous cell types (PubMed:21269602). This cadherin may play a important role in endothelial cell biology through control of the cohesion and organization of the intercellular junctions (By similarity). It associates with alpha-catenin forming a link to the cytoskeleton (PubMed:10861224). Acts in concert with KRIT1 and MPP5 to establish and maintain correct endothelial cell polarity and vascular lumen (By similarity). These effects are mediated by recruitment and activation of the Par polarity complex and RAP1B (PubMed:20332120). Required for activation of PRKCZ and for the localization of phosphorylated PRKCZ, PARD3, TIAM1 and RAP1B to the cell junction (PubMed:20332120).
GENATLAS Biochemistry:
cadherin 5,VE-cadherin,transmembrane glycoprotein component of adherens junction,expressed in vascular endothelium,integrity and normal organ function required for vascular

Phenotypes From GWAS Catalog for CDH5 Gene

Gene Ontology (GO) - Molecular Function for CDH5 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005102 signaling receptor binding IPI 12088286
GO:0005509 calcium ion binding IBA 21873635
GO:0005515 protein binding IPI 17057644
GO:0008013 beta-catenin binding IPI 18287330
GO:0008092 cytoskeletal protein binding IBA 21873635
genes like me logo Genes that share ontologies with CDH5: view
genes like me logo Genes that share phenotypes with CDH5: view

Animal Models for CDH5 Gene

MGI Knock Outs for CDH5:

Animal Model Products

CRISPR Products

Clone Products

  • Addgene plasmids for CDH5

No data available for Enzyme Numbers (IUBMB) , Human Phenotype Ontology , Transcription Factor Targets and HOMER Transcription for CDH5 Gene

Localization for CDH5 Gene

Subcellular locations from UniProtKB/Swiss-Prot for CDH5 Gene

Cell junction. Cell membrane; Single-pass type I membrane protein. Note=Found at cell-cell boundaries and probably at cell-matrix boundaries. KRIT1 and CDH5 reciprocally regulate their localization to endothelial cell-cell junctions. {ECO:0000269 PubMed:20332120}.

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 CDH5 gene
Compartment Confidence
plasma membrane 5
extracellular 3
cytoskeleton 3
mitochondrion 1
nucleus 1
endoplasmic reticulum 1
endosome 1
cytosol 1
lysosome 0

Gene Ontology (GO) - Cellular Components for CDH5 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005886 plasma membrane IDA,TAS --
GO:0005911 cell-cell junction IDA 15572031
GO:0005912 adherens junction IEA --
GO:0005913 cell-cell adherens junction IDA 25978380
GO:0005923 bicellular tight junction IBA 21873635
genes like me logo Genes that share ontologies with CDH5: view

No data available for Subcellular locations from the Human Protein Atlas (HPA) for CDH5 Gene

Pathways & Interactions for CDH5 Gene

genes like me logo Genes that share pathways with CDH5: view

SIGNOR curated interactions for CDH5 Gene

Is activated by:
Is inactivated by:

Gene Ontology (GO) - Biological Process for CDH5 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0000902 cell morphogenesis IBA 21873635
GO:0001932 regulation of protein phosphorylation IDA 23159740
GO:0001955 blood vessel maturation IEA --
GO:0006874 cellular calcium ion homeostasis IDA 23159740
GO:0007043 cell-cell junction assembly IMP 23288152
genes like me logo Genes that share ontologies with CDH5: view

Drugs & Compounds for CDH5 Gene

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  1. Drug

(19) Drugs for CDH5 Gene - From: DrugBank, ApexBio, DGIdb, HMDB, and Novoseek

Name Status Disease Links Group Role Mechanism of Action Clinical Trials
Lenalidomide Approved Pharma Target, antagonist Anti-angiogenic. 848
Calcium Approved Nutra 7773
FX06 Investigational Pharma Target 0
Cadherin Peptide, avian Pharma Role in cell adhesion 0

(14) Additional Compounds for CDH5 Gene - From: Novoseek

Name Synonyms Role CAS Number PubChem IDs PubMed IDs

(1) ApexBio Compounds for CDH5 Gene

Compound Action Cas Number
Cadherin Peptide, avian Role in cell adhesion 127650-08-2
genes like me logo Genes that share compounds with CDH5: view

Transcripts for CDH5 Gene

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  1. CRISPR
  2. miRNA
  3. Inhibitory RNA
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mRNA/cDNA for CDH5 Gene

(2) REFSEQ mRNAs :
(15) Additional mRNA sequences :
(101) Selected AceView cDNA sequences:
(9) Ensembl transcripts including schematic representations, and UCSC links to gene/alias where relevant :

CRISPR Products

Clone Products

  • Addgene plasmids for CDH5

Alternative Splicing Database (ASD) splice patterns (SP) for CDH5 Gene

ExUns: 1a · 1b · 1c · 1d ^ 2 ^ 3 ^ 4a · 4b ^ 5 ^ 6a · 6b · 6c ^ 7a · 7b · 7c ^ 8 ^ 9 ^ 10a · 10b ^ 11 ^ 12 ^ 13 ^ 14 ^ 15a · 15b
SP1: - - -
SP2: - - - - - -
SP3: - - -
SP4: - -
SP5: -
SP6:

Relevant External Links for CDH5 Gene

GeneLoc Exon Structure for
CDH5
ECgene alternative splicing isoforms for
CDH5

Expression for CDH5 Gene

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  1. Primer
  2. Gene Expression Assay

mRNA expression in normal human tissues from GTEx, Illumina, BioGPS, and CGAP SAGE for CDH5 Gene

mRNA expression in normal human tissues for CDH5 Gene
mRNA expression by BioGPS for CDH5 GenemRNA expression by GTEx for CDH5 Gene

mRNA expression in embryonic tissues and stem cells from LifeMap Discovery

mRNA differential expression in normal tissues according to GTEx for CDH5 Gene

This gene is overexpressed in Adipose - Visceral (Omentum) (x4.5) and Lung (x4.2).

Protein differential expression in normal tissues from HIPED for CDH5 Gene

This gene is overexpressed in Serum (53.6).

Integrated Proteomics: protein expression in normal tissues and cell lines from ProteomicsDB and MOPED for CDH5 Gene



NURSA nuclear receptor signaling pathways regulating expression of CDH5 Gene:

CDH5

SOURCE GeneReport for Unigene cluster for CDH5 Gene:

Hs.76206

mRNA Expression by UniProt/SwissProt for CDH5 Gene:

P33151-CADH5_HUMAN
Tissue specificity: Endothelial tissues and brain.

Evidence on tissue expression from TISSUES for CDH5 Gene

  • Heart(4.8)
  • Nervous system(4.7)
  • Bone marrow(4.4)
  • Muscle(3.1)
  • Lung(3)
  • Blood(2.8)
  • Liver(2.2)
  • Eye(2)
  • Kidney(2)
genes like me logo Genes that share expression patterns with CDH5: view

No data available for Protein tissue co-expression partners and Phenotype-based relationships between genes and organs from Gene ORGANizer for CDH5 Gene

Orthologs for CDH5 Gene

This gene was present in the common ancestor of chordates.

Orthologs for CDH5 Gene

Organism Taxonomy Gene Similarity Type Details
chimpanzee
(Pan troglodytes)
 Mammalia CDH5 33 32
  • 99.53 (n)
 OneToOne
dog
(Canis familiaris)
 Mammalia CDH5 33 32
  • 85.11 (n)
 OneToOne
cow
(Bos Taurus)
 Mammalia CDH5 33 32
  • 83.5 (n)
 OneToOne
rat
(Rattus norvegicus)
 Mammalia Cdh5 32
  • 80.28 (n)
mouse
(Mus musculus)
 Mammalia Cdh5 17 33 32
  • 80.11 (n)
oppossum
(Monodelphis domestica)
 Mammalia CDH5 33
  • 69 (a)
 OneToOne
chicken
(Gallus gallus)
 Aves CDH5 33 32
  • 61.17 (n)
 OneToOne
lizard
(Anolis carolinensis)
 Reptilia CDH5 33
  • 54 (a)
 OneToOne
tropical clawed frog
(Silurana tropicalis)
 Amphibia cdh5 32
  • 57.89 (n)
zebrafish
(Danio rerio)
 Actinopterygii cdh5 33 32
  • 50.96 (n)
 OneToOne
Species where no ortholog for CDH5 was found in the sources mined by GeneCards:
  • 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)
  • fruit fly (Drosophila melanogaster)
  • 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)
  • platypus (Ornithorhynchus anatinus)
  • rainbow trout (Oncorhynchus mykiss)
  • rice (Oryza sativa)
  • rice blast fungus (Magnaporthe grisea)
  • schistosome parasite (Schistosoma mansoni)
  • sea anemone (Nematostella vectensis)
  • sea squirt (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)
  • wheat (Triticum aestivum)
  • worm (Caenorhabditis elegans)

Evolution for CDH5 Gene

ENSEMBL:
Gene Tree for CDH5 (if available)
TreeFam:
Gene Tree for CDH5 (if available)
Aminode:
Evolutionary constrained regions (ECRs) for CDH5: view image

Paralogs for CDH5 Gene

Paralogs for CDH5 Gene

(21) SIMAP similar genes for CDH5 Gene using alignment to 8 proteins:

  • CADH5_HUMAN
  • B4DTR2_HUMAN
  • H3BPG1_HUMAN
  • H3BQ82_HUMAN
  • H3BR11_HUMAN
  • H3BR64_HUMAN
  • I3L1J2_HUMAN
  • Q4VAI4_HUMAN
genes like me logo Genes that share paralogs with CDH5: view

Variants for CDH5 Gene

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Sequence variations from dbSNP and Humsavar for CDH5 Gene

SNP ID Clin Chr 16 pos Variation AA Info Type
rs1000009724 -- 66,401,799(+) C/G intron_variant
rs1000052307 -- 66,390,433(+) C/A coding_sequence_variant, missense_variant
rs1000110191 -- 66,397,240(+) A/G intron_variant
rs1000140788 -- 66,384,600(+) A/G intron_variant
rs1000278513 -- 66,384,317(+) C/T intron_variant

Structural Variations from Database of Genomic Variants (DGV) for CDH5 Gene

Variant ID Type Subtype PubMed ID
esv2468646 CNV deletion 19546169
esv2714642 CNV deletion 23290073
esv2714643 CNV deletion 23290073
esv3448646 CNV duplication 20981092
esv4828 CNV loss 18987735
nsv572902 CNV loss 21841781
nsv833264 CNV gain 17160897
nsv958050 CNV deletion 24416366

Variation tolerance for CDH5 Gene

Residual Variation Intolerance Score: 36.7% of all genes are more intolerant (likely to be disease-causing)
Gene Damage Index Score: 3.62; 56.58% of all genes are more intolerant (likely to be disease-causing)

Additional Variant Information for CDH5 Gene

Human Gene Mutation Database (HGMD)
CDH5
SNPedia medical, phenotypic, and genealogical associations of SNPs for
CDH5

SNP Genotyping and Copy Number Assay Products

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot for CDH5 Gene

Disorders for CDH5 Gene

MalaCards: The human disease database

(7) MalaCards diseases for CDH5 Gene - From: HGMD, DISEASES, Novoseek, and GeneCards

Disorder Aliases PubMed IDs
periapical granuloma
  • apical granuloma
epithelioid sarcoma
  • epithelioid cell sarcoma
ovarian hyperstimulation syndrome
  • ohss
spastic paraplegia 3, autosomal dominant
  • spg3a
melanoma, uveal
  • uveal melanoma
- elite association - COSMIC cancer census association via MalaCards
Search CDH5 in MalaCards View complete list of genes associated with diseases

Additional Disease Information for CDH5

Genetic Association Database
(GAD)
Human Genome Epidemiology Navigator
(HuGE)
ATLAS of Genetics and Cytogenetics in Oncology and Haematology
genes like me logo Genes that share disorders with CDH5: view

No data available for UniProtKB/Swiss-Prot and Genatlas for CDH5 Gene

Publications for CDH5 Gene

  1. Vascular endothelial cadherin (VE-cadherin): cloning and role in endothelial cell-cell adhesion. (PMID: 9219219) Ali J … Muller WA (Microcirculation (New York, N.Y. : 1994) 1997) 3 4 23 56
  2. Functional properties of human vascular endothelial cadherin (7B4/cadherin-5), an endothelium-specific cadherin. (PMID: 7627717) Breviario F … Dejana E (Arteriosclerosis, thrombosis, and vascular biology 1995) 3 4 23 56
  3. Diversity of the cadherin family: evidence for eight new cadherins in nervous tissue. (PMID: 2059658) Suzuki S … Tanihara H (Cell regulation 1991) 2 3 4 56
  4. Endothelial reticulon-4B (Nogo-B) regulates ICAM-1-mediated leukocyte transmigration and acute inflammation. (PMID: 21183689) Di Lorenzo A … Sessa WC (Blood 2011) 3 4 56
  5. Variation at the NFATC2 locus increases the risk of thiazolidinedione-induced edema in the Diabetes REduction Assessment with ramipril and rosiglitazone Medication (DREAM) study. (PMID: 20628086) Bailey SD … DREAM investigators (Diabetes care 2010) 3 43 56

ExternalLinks

View latest publications for CDH5 gene in Mastermind

Products for CDH5 Gene

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