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Aliases for PCDHB11 Gene

Aliases for PCDHB11 Gene

  • Protocadherin Beta 11 2 3 5
  • Cadherin ME2 2 3
  • PCDH-Beta-11 3 4
  • Protocadherin Beta-11 3
  • PCDH-BETA11 3
  • ME2 3

External Ids for PCDHB11 Gene

Previous GeneCards Identifiers for PCDHB11 Gene

  • GC05P140395
  • GC05P141162
  • GC05P140562
  • GC05P140607
  • GC05P140559
  • GC05P140579
  • GC05P135724
  • GC05P141355
  • GC05P141505
  • GC05P141611
  • GC05P141714

Summaries for PCDHB11 Gene

Entrez Gene Summary for PCDHB11 Gene

  • This gene is a member of the protocadherin beta gene cluster, one of three related gene clusters tandemly linked on chromosome five. The gene clusters demonstrate an unusual genomic organization similar to that of B-cell and T-cell receptor gene clusters. The beta cluster contains 16 genes and 3 pseudogenes, each encoding 6 extracellular cadherin domains and a cytoplasmic tail that deviates from others in the cadherin superfamily. The extracellular domains interact in a homophilic manner to specify differential cell-cell connections. Unlike the alpha and gamma clusters, the transcripts from these genes are made up of only one large exon, not sharing common 3' exons as expected. These neural cadherin-like cell adhesion proteins are integral plasma membrane proteins. Their specific functions are unknown but they most likely play a critical role in the establishment and function of specific cell-cell neural connections. [provided by RefSeq, Jul 2008]

GeneCards Summary for PCDHB11 Gene

PCDHB11 (Protocadherin Beta 11) is a Protein Coding gene. GO annotations related to this gene include calcium ion binding. An important paralog of this gene is PCDHB12.

UniProtKB/Swiss-Prot for PCDHB11 Gene

  • Potential calcium-dependent cell-adhesion protein. May be involved in the establishment and maintenance of specific neuronal connections in the brain.

Gene Wiki entry for PCDHB11 Gene

No data available for Tocris Summary , PharmGKB "VIP" Summary , fRNAdb sequence ontologies and piRNA Summary for PCDHB11 Gene

Genomics for PCDHB11 Gene

Regulatory Elements for PCDHB11 Gene

Enhancers for PCDHB11 Gene
GeneHancer Identifier Enhancer Score Enhancer Sources Gene-Enhancer Score TSS distance (kb) Number of Genes Away Size (kb) Transcription Factor Binding Sites within enhancer Gene Targets for Enhancer
GH05F141968 1.2 ENCODE 19.6 +770.0 769985 3.0 HDGF PKNOX1 ARNT WRNIP1 ARID4B SIN3A DMAP1 ZNF2 YY1 SLC30A9 PCDHB5 KIAA0141 HDAC3 PCDHGA5 PCDHB12 RNF14 PCDHB11 PCDHB4 PCDHB19P PCDHB18P
GH05F141940 1.4 Ensembl ENCODE 12.4 +742.7 742688 2.9 PKNOX1 ARNT CREB3L1 ARID4B SIN3A DMAP1 ZNF2 YY1 SLC30A9 CBX5 PCDH1 PCDHGB4 PCDHB17P PCDHB11 PCDHB13 PCDH12 PCDHGB3 PCDHB12 PCDHB7 PCDHGB6
GH05F141563 1.3 Ensembl ENCODE 12.4 +364.8 364831 1.4 PKNOX1 ATF1 ARNT SIN3A DMAP1 BRCA1 ZNF2 YY1 CBX5 ZNF143 PCDHGB4 PCDHB11 PCDHB13 PCDHGB3 PCDHB12 PCDHB7 PCDHGB6 PCDHGA7 PCDHB18P PCDHGA8
GH05F141319 1.2 ENCODE 12.5 +121.1 121068 1.9 HDGF PKNOX1 CREB3L1 WRNIP1 ARID4B SIN3A DMAP1 ZNF2 YY1 SLC30A9 PCDHB15 FCHSD1 MRPL11P2 VTRNA1-1 PCDHGB4 PCDHB11 PCDHB13 HDAC3 PCDHGB3 PCDHB12
GH05F141922 1.1 ENCODE 12.4 +724.2 724187 2.1 HDGF PKNOX1 CREB3L1 ARID4B SIN3A DMAP1 ZNF2 YY1 SLC30A9 ZNF143 PCDHGB4 PCDHB11 PCDHB13 PCDHGB3 PCDHB12 PCDHB7 PCDHGB6 PCDHGA7 PCDHB18P PCDHGA8
- Elite enhancer and/or Elite enhancer-gene association Download GeneHancer data dump

Enhancers around PCDHB11 on UCSC Golden Path with GeneCards custom track

Promoters for PCDHB11 Gene
Ensembl Regulatory Elements (ENSRs) TSS Distance (bp) Size (bp) Binding Sites for Transcription Factors within promoters
ENSR00001874434 318 600 CTCF ZNF654 ZFP64 ZBTB11 ZBTB8A ZNF518A ZNF781 RAD21 ZNF101 SMC3

Genomic Location for PCDHB11 Gene

Chromosome:
5
Start:
141,199,582 bp from pter
End:
141,203,779 bp from pter
Size:
4,198 bases
Orientation:
Plus strand

Genomic View for PCDHB11 Gene

Genes around PCDHB11 on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
PCDHB11 Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for PCDHB11 Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for PCDHB11 Gene

Proteins for PCDHB11 Gene

  • Protein details for PCDHB11 Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    Q9Y5F2-PCDBB_HUMAN
    Recommended name:
    Protocadherin beta-11
    Protein Accession:
    Q9Y5F2
    Secondary Accessions:
    • B4DSF7
    • Q2M223

    Protein attributes for PCDHB11 Gene

    Size:
    797 amino acids
    Molecular mass:
    87088 Da
    Quaternary structure:
    No Data Available

    Alternative splice isoforms for PCDHB11 Gene

    UniProtKB/Swiss-Prot:

neXtProt entry for PCDHB11 Gene

Post-translational modifications for PCDHB11 Gene

  • Glycosylation at Asn 418, Asn 436, Asn 487, and Asn 567
  • Modification sites at PhosphoSitePlus

Other Protein References for PCDHB11 Gene

ENSEMBL proteins:
REFSEQ proteins:

No data available for DME Specific Peptides for PCDHB11 Gene

Domains & Families for PCDHB11 Gene

Gene Families for PCDHB11 Gene

Protein Domains for PCDHB11 Gene

Suggested Antigen Peptide Sequences for PCDHB11 Gene

Graphical View of Domain Structure for InterPro Entry

Q9Y5F2

UniProtKB/Swiss-Prot:

PCDBB_HUMAN :
  • Contains 6 cadherin domains.
Domain:
  • Contains 6 cadherin domains.
genes like me logo Genes that share domains with PCDHB11: view

Function for PCDHB11 Gene

Molecular function for PCDHB11 Gene

UniProtKB/Swiss-Prot Function:
Potential calcium-dependent cell-adhesion protein. May be involved in the establishment and maintenance of specific neuronal connections in the brain.

Gene Ontology (GO) - Molecular Function for PCDHB11 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005509 calcium ion binding IEA --
genes like me logo Genes that share ontologies with PCDHB11: view

Phenotypes for PCDHB11 Gene

genes like me logo Genes that share phenotypes with PCDHB11: view

Animal Model Products

Inhibitory RNA Products

Clone Products

Flow Cytometry Products

No data available for Enzyme Numbers (IUBMB) , Human Phenotype Ontology , Animal Models , Transcription Factor Targets and HOMER Transcription for PCDHB11 Gene

Localization for PCDHB11 Gene

Subcellular locations from UniProtKB/Swiss-Prot for PCDHB11 Gene

Cell membrane; Single-pass type I membrane protein.

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 PCDHB11 gene
Compartment Confidence
plasma membrane 5
extracellular 2
peroxisome 1

Gene Ontology (GO) - Cellular Components for PCDHB11 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005886 plasma membrane IEA --
GO:0005887 integral component of plasma membrane TAS 10380929
GO:0016020 membrane IEA --
GO:0016021 integral component of membrane NAS 11322959
genes like me logo Genes that share ontologies with PCDHB11: view

Pathways & Interactions for PCDHB11 Gene

SuperPathways for PCDHB11 Gene

No Data Available

Interacting Proteins for PCDHB11 Gene

STRING Interaction Network Preview (showing 5 interactants - click image to see 7)
http://string-db.org/version_10/api/image/networkList?limit=0&targetmode=proteins&caller_identity=gene_cards&network_flavor=evidence&identifiers=9606.ENSP00000346802%0d%0a9606.ENSP00000344818%0d%0a9606.ENSP00000362481%0d%0a9606.ENSP00000311113%0d%0a9606.ENSP00000344456%0d%0a9606.ENSP00000346155%0d%0a
Selected Interacting proteins: Q9Y5F2-PCDBB_HUMAN ENSP00000346802 for PCDHB11 Gene via IID STRING

Gene Ontology (GO) - Biological Process for PCDHB11 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0007155 cell adhesion TAS 10380929
GO:0007156 homophilic cell adhesion via plasma membrane adhesion molecules IEA --
GO:0007268 chemical synaptic transmission TAS 12231349
GO:0007399 nervous system development TAS 10380929
GO:0007416 synapse assembly TAS 12231349
genes like me logo Genes that share ontologies with PCDHB11: view

No data available for Pathways by source and SIGNOR curated interactions for PCDHB11 Gene

Drugs & Compounds for PCDHB11 Gene

(1) Drugs for PCDHB11 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 PCDHB11: view

Transcripts for PCDHB11 Gene

mRNA/cDNA for PCDHB11 Gene

(1) REFSEQ mRNAs :
(8) Additional mRNA sequences :
(11) Selected AceView cDNA sequences:
(2) Ensembl transcripts including schematic representations, and UCSC links where relevant :

Unigene Clusters for PCDHB11 Gene

Protocadherin beta 11:
Representative Sequences:

Inhibitory RNA Products

Clone Products

Flow Cytometry Products

Alternative Splicing Database (ASD) splice patterns (SP) for PCDHB11 Gene

No ASD Table

Relevant External Links for PCDHB11 Gene

GeneLoc Exon Structure for
PCDHB11
ECgene alternative splicing isoforms for
PCDHB11

Expression for PCDHB11 Gene

mRNA expression in normal human tissues from GTEx, Illumina, BioGPS, and SAGE for PCDHB11 Gene

mRNA expression in embryonic tissues and stem cells from LifeMap Discovery

mRNA differential expression in normal tissues according to GTEx for PCDHB11 Gene

This gene is overexpressed in Artery - Aorta (x4.1).

Protein differential expression in normal tissues from HIPED for PCDHB11 Gene

This gene is overexpressed in Peripheral blood mononuclear cells (69.0).

Integrated Proteomics: protein expression in normal tissues and cell lines from ProteomicsDB, PaxDb, and MOPED for PCDHB11 Gene



Protein tissue co-expression partners for PCDHB11 Gene

- Elite partner

NURSA nuclear receptor signaling pathways regulating expression of PCDHB11 Gene:

PCDHB11

SOURCE GeneReport for Unigene cluster for PCDHB11 Gene:

Hs.283084
genes like me logo Genes that share expression patterns with PCDHB11: view

Primer Products

No data available for mRNA Expression by UniProt/SwissProt for PCDHB11 Gene

Orthologs for PCDHB11 Gene

This gene was present in the common ancestor of chordates.

Orthologs for PCDHB11 Gene

Organism Taxonomy Gene Similarity Type Details
chimpanzee
(Pan troglodytes)
Mammalia PCDHB11 34 35
  • 98.16 (n)
cow
(Bos Taurus)
Mammalia -- 35
  • 83 (a)
OneToMany
PCDHB11 34
  • 76.32 (n)
dog
(Canis familiaris)
Mammalia PCDHB11 34
  • 76.33 (n)
mouse
(Mus musculus)
Mammalia Pcdhb19 35
  • 74 (a)
OneToMany
Pcdhb21 34 16
  • 72.18 (n)
rat
(Rattus norvegicus)
Mammalia Pcdhb21 34
  • 70.47 (n)
oppossum
(Monodelphis domestica)
Mammalia -- 35
  • 66 (a)
ManyToMany
-- 35
  • 66 (a)
ManyToMany
-- 35
  • 66 (a)
ManyToMany
-- 35
  • 65 (a)
ManyToMany
-- 35
  • 64 (a)
ManyToMany
-- 35
  • 64 (a)
ManyToMany
-- 35
  • 63 (a)
ManyToMany
platypus
(Ornithorhynchus anatinus)
Mammalia -- 35
  • 63 (a)
ManyToMany
-- 35
  • 63 (a)
ManyToMany
-- 35
  • 61 (a)
ManyToMany
chicken
(Gallus gallus)
Aves LOC100857645 34
  • 57.56 (n)
Species where no ortholog for PCDHB11 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)
  • 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 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)
  • tropical clawed frog (Silurana tropicalis)
  • wheat (Triticum aestivum)
  • worm (Caenorhabditis elegans)
  • zebrafish (Danio rerio)

Evolution for PCDHB11 Gene

ENSEMBL:
Gene Tree for PCDHB11 (if available)
TreeFam:
Gene Tree for PCDHB11 (if available)

Paralogs for PCDHB11 Gene

genes like me logo Genes that share paralogs with PCDHB11: view

Variants for PCDHB11 Gene

Sequence variations from dbSNP and Humsavar for PCDHB11 Gene

SNP ID Clin Chr 05 pos Sequence Context AA Info Type
rs111976760 -- 141,199,450(+) ACACA(A/G)TGAAT upstream-variant-2KB
rs112020614 -- 141,200,388(+) AGAGC(G/T)CCCGG reference, missense
rs112044047 -- 141,203,245(+) CCCAG(A/C)TAATT downstream-variant-500B
rs112808583 -- 141,199,779(+) TATGG(A/G)GAACC reference, missense
rs112871983 -- 141,200,853(+) AAATA(C/G/T)GCCAG reference, missense

Structural Variations from Database of Genomic Variants (DGV) for PCDHB11 Gene

Variant ID Type Subtype PubMed ID
nsv969261 CNV duplication 23825009
nsv823266 CNV gain 20364138
nsv599919 CNV loss 21841781
nsv599908 CNV loss 21841781
nsv5031 CNV insertion 18451855
nsv471634 CNV gain+loss 15918152
nsv428127 CNV loss 18775914
nsv1024594 CNV loss 25217958
esv2759382 CNV gain 17122850
esv2730846 CNV deletion 23290073
esv2664767 CNV deletion 23128226
dgv958e201 CNV deletion 23290073

Variation tolerance for PCDHB11 Gene

Residual Variation Intolerance Score: 46.7% of all genes are more intolerant (likely to be disease-causing)
Gene Damage Index Score: 12.37; 94.20% of all genes are more intolerant (likely to be disease-causing)

Relevant External Links for PCDHB11 Gene

SNPedia medical, phenotypic, and genealogical associations of SNPs for
PCDHB11

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot for PCDHB11 Gene

Disorders for PCDHB11 Gene

Relevant External Links for PCDHB11

Genetic Association Database (GAD)
PCDHB11
Human Genome Epidemiology (HuGE) Navigator
PCDHB11
Atlas of Genetics and Cytogenetics in Oncology and Haematology:
PCDHB11

No disorders were found for PCDHB11 Gene.

No data available for MalaCards , UniProtKB/Swiss-Prot and Genatlas for PCDHB11 Gene

Publications for PCDHB11 Gene

  1. A striking organization of a large family of human neural cadherin- like cell adhesion genes. (PMID: 10380929) Wu Q. … Maniatis T. (Cell 1999) 2 3 4 64
  2. Polymorphisms in genes involved in neurodevelopment may be associated with altered brain morphology in schizophrenia: preliminary evidence. (PMID: 19054571) GregA^rio S.P. … Dias-Neto E. (Psychiatry Res 2009) 3 46 64
  3. The status, quality, and expansion of the NIH full-length cDNA project: the Mammalian Gene Collection (MGC). (PMID: 15489334) Gerhard D.S. … Malek J. (Genome Res. 2004) 3 4 64
  4. The human and murine protocadherin-beta one-exon gene families show high evolutionary conservation, despite the difference in gene number. (PMID: 11322959) Vanhalst K. … van Roy F. (FEBS Lett. 2001) 3 4 64
  5. Functional test of PCDHB11, the most human-specific neuronal surface protein. (PMID: 27068704) de Freitas G.B. … Gralle M. (BMC Evol. Biol. 2016) 3 64

Products for PCDHB11 Gene

Sources for PCDHB11 Gene

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