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Protein

Protocadherin beta-5

Gene

PCDHB5

Organism
Homo sapiens (Human)
Status
Reviewed-Annotation score: Annotation score: 4 out of 5-Experimental evidence at transcript leveli

Functioni

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

GO - Molecular functioni

GO - Biological processi

  • calcium-dependent cell-cell adhesion via plasma membrane cell adhesion molecules Source: UniProtKB
  • homophilic cell adhesion via plasma membrane adhesion molecules Source: InterPro
  • synapse assembly Source: UniProtKB
  • synaptic transmission Source: UniProtKB
Complete GO annotation...

Keywords - Biological processi

Cell adhesion

Keywords - Ligandi

Calcium

Names & Taxonomyi

Protein namesi
Recommended name:
Protocadherin beta-5
Short name:
PCDH-beta-5
Gene namesi
Name:PCDHB5
OrganismiHomo sapiens (Human)
Taxonomic identifieri9606 [NCBI]
Taxonomic lineageiEukaryotaMetazoaChordataCraniataVertebrataEuteleostomiMammaliaEutheriaEuarchontogliresPrimatesHaplorrhiniCatarrhiniHominidaeHomo
ProteomesiUP000005640 Componenti: Chromosome 5

Organism-specific databases

HGNCiHGNC:8690. PCDHB5.

Subcellular locationi

Topology

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Topological domaini31 – 689659ExtracellularSequence AnalysisAdd
BLAST
Transmembranei690 – 71021HelicalSequence AnalysisAdd
BLAST
Topological domaini711 – 79585CytoplasmicSequence AnalysisAdd
BLAST

GO - Cellular componenti

  • integral component of membrane Source: UniProtKB
  • plasma membrane Source: UniProtKB-SubCell
Complete GO annotation...

Keywords - Cellular componenti

Cell membrane, Membrane

Pathology & Biotechi

Organism-specific databases

PharmGKBiPA33039.

Polymorphism and mutation databases

BioMutaiPCDHB5.
DMDMi13431375.

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Signal peptidei1 – 3030Sequence AnalysisAdd
BLAST
Chaini31 – 795765Protocadherin beta-5PRO_0000003922Add
BLAST

Amino acid modifications

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Glycosylationi169 – 1691N-linked (GlcNAc...)Sequence Analysis
Glycosylationi417 – 4171N-linked (GlcNAc...)Sequence Analysis
Glycosylationi435 – 4351N-linked (GlcNAc...)Sequence Analysis
Glycosylationi566 – 5661N-linked (GlcNAc...)Sequence Analysis

Keywords - PTMi

Glycoprotein

Proteomic databases

PaxDbiQ9Y5E4.
PeptideAtlasiQ9Y5E4.
PRIDEiQ9Y5E4.

PTM databases

PhosphoSiteiQ9Y5E4.

Expressioni

Gene expression databases

BgeeiQ9Y5E4.
CleanExiHS_PCDHB5.
ExpressionAtlasiQ9Y5E4. baseline and differential.
GenevisibleiQ9Y5E4. HS.

Organism-specific databases

HPAiHPA013191.

Interactioni

Protein-protein interaction databases

BioGridi117593. 2 interactions.
IntActiQ9Y5E4. 2 interactions.
STRINGi9606.ENSP00000231134.

Structurei

3D structure databases

ProteinModelPortaliQ9Y5E4.
SMRiQ9Y5E4. Positions 31-676.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Domains and Repeats

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Domaini35 – 13399Cadherin 1PROSITE-ProRule annotationAdd
BLAST
Domaini138 – 242105Cadherin 2PROSITE-ProRule annotationAdd
BLAST
Domaini247 – 346100Cadherin 3PROSITE-ProRule annotationAdd
BLAST
Domaini351 – 450100Cadherin 4PROSITE-ProRule annotationAdd
BLAST
Domaini455 – 560106Cadherin 5PROSITE-ProRule annotationAdd
BLAST
Domaini567 – 670104Cadherin 6PROSITE-ProRule annotationAdd
BLAST

Sequence similaritiesi

Contains 6 cadherin domains.PROSITE-ProRule annotation

Keywords - Domaini

Repeat, Signal, Transmembrane, Transmembrane helix

Phylogenomic databases

eggNOGiNOG251260.
HOVERGENiHBG054878.
InParanoidiQ9Y5E4.
KOiK16494.
OMAiAPRRSGM.
OrthoDBiEOG7KSX80.
PhylomeDBiQ9Y5E4.
TreeFamiTF332299.

Family and domain databases

Gene3Di2.60.40.60. 5 hits.
InterProiIPR002126. Cadherin.
IPR015919. Cadherin-like.
IPR020894. Cadherin_CS.
IPR013164. Cadherin_N.
IPR030730. PCDHB5.
[Graphical view]
PANTHERiPTHR24028:SF64. PTHR24028:SF64. 1 hit.
PfamiPF00028. Cadherin. 5 hits.
PF08266. Cadherin_2. 1 hit.
[Graphical view]
PRINTSiPR00205. CADHERIN.
SMARTiSM00112. CA. 5 hits.
[Graphical view]
SUPFAMiSSF49313. SSF49313. 5 hits.
PROSITEiPS00232. CADHERIN_1. 5 hits.
PS50268. CADHERIN_2. 6 hits.
[Graphical view]

Sequencei

Sequence statusi: Complete.

Sequence processingi: The displayed sequence is further processed into a mature form.

Q9Y5E4-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
METALAKTPQ KRQVMFLAIL LLLWEAGSEA VRYSIPEETE SGYSVANLAK
60 70 80 90 100
DLGLGVGELA TRGARMHYKG NKELLQLDIK TGNLLLYEKL DREVMCGATE
110 120 130 140 150
PCILHFQLLL ENPVQFFQTD LQLTDINDHA PEFPEKEMLL KIPESTQPGT
160 170 180 190 200
VFPLKIAQDF DIGSNTVQNY TISPNSHFHV ATHNRGDGRK YPELVLDKAL
210 220 230 240 250
DREERPELSL TLTALDGGAP PRSGTTTIRI VVLDNNDNAP EFLQSFYEVQ
260 270 280 290 300
VPENSPLNSL VVVVSARDLD AGAYGSVAYA LFQGDEVTQP FVIDEKTAEI
310 320 330 340 350
RLKRALDFEA TPYYNVEIVA TDGGGLSGKC TVAIEVVDVN DNAPELTMST
360 370 380 390 400
LSSPTPENAP ETVVAVFSVS DPDSGDNGRM ICSIQNDLPF LLKPTLKNFY
410 420 430 440 450
TLVTQRTLDR ESQAEYNITI TVTDMGTPRL KTEHNITVLV SDVNDNAPAF
460 470 480 490 500
TQTSYTLFVR ENNSPALHIG SVSATDRDSG TNAQVTYSLL PPQNPHLRLA
510 520 530 540 550
SLVSINADNG HLFALRSLDY EALQAFEFRV GATDRGSPAL SSEALVRVLV
560 570 580 590 600
LDANDNSPFV LYPLQNGSAP CTELVPRAAE PGYLVTKVVA VDGDSGQNAW
610 620 630 640 650
LSYQLLKATE PGLFSMWAHN GEVRTARLLS ERDAAKHRLV VLVKDNGEPP
660 670 680 690 700
RSATATLHVL LVDGFSQPYL PLPEAAPAQA QADSLTVYLV VALASVSSLF
710 720 730 740 750
LFSVLLFVAV RLCRRSRAAS VGRCSVPEGP FPGHLVDVSG TGTLSQSYHY
760 770 780 790
EVCLTGDSGA GEFKFLKPII PNLLPQGAGE EIGKTAAFRN SFGLN
Length:795
Mass (Da):86,423
Last modified:November 1, 1999 - v1
Checksum:i06F743580DC65B64
GO

Natural variant

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Natural varianti156 – 1561I → T.
Corresponds to variant rs17096901 [ dbSNP | Ensembl ].
VAR_033704
Natural varianti720 – 7201S → P.2 Publications
Corresponds to variant rs400562 [ dbSNP | Ensembl ].
VAR_048552

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AF152498 mRNA. Translation: AAD43759.1.
AF134474 mRNA. Translation: AAP97251.1.
AF217753 mRNA. Translation: AAK51620.1.
BC001186 mRNA. Translation: AAH01186.1.
AL117449 mRNA. Translation: CAB55933.1.
CCDSiCCDS4247.1.
PIRiT17243.
RefSeqiNP_056484.2. NM_015669.4.
UniGeneiHs.119693.

Genome annotation databases

EnsembliENST00000231134; ENSP00000231134; ENSG00000113209.
GeneIDi26167.
KEGGihsa:26167.
UCSCiuc003liq.3. human.

Keywords - Coding sequence diversityi

Polymorphism

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AF152498 mRNA. Translation: AAD43759.1.
AF134474 mRNA. Translation: AAP97251.1.
AF217753 mRNA. Translation: AAK51620.1.
BC001186 mRNA. Translation: AAH01186.1.
AL117449 mRNA. Translation: CAB55933.1.
CCDSiCCDS4247.1.
PIRiT17243.
RefSeqiNP_056484.2. NM_015669.4.
UniGeneiHs.119693.

3D structure databases

ProteinModelPortaliQ9Y5E4.
SMRiQ9Y5E4. Positions 31-676.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

BioGridi117593. 2 interactions.
IntActiQ9Y5E4. 2 interactions.
STRINGi9606.ENSP00000231134.

PTM databases

PhosphoSiteiQ9Y5E4.

Polymorphism and mutation databases

BioMutaiPCDHB5.
DMDMi13431375.

Proteomic databases

PaxDbiQ9Y5E4.
PeptideAtlasiQ9Y5E4.
PRIDEiQ9Y5E4.

Protocols and materials databases

DNASUi26167.
Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsembliENST00000231134; ENSP00000231134; ENSG00000113209.
GeneIDi26167.
KEGGihsa:26167.
UCSCiuc003liq.3. human.

Organism-specific databases

CTDi26167.
GeneCardsiGC05P140514.
HGNCiHGNC:8690. PCDHB5.
HPAiHPA013191.
MIMi604967. gene.
606331. gene.
neXtProtiNX_Q9Y5E4.
PharmGKBiPA33039.
GenAtlasiSearch...

Phylogenomic databases

eggNOGiNOG251260.
HOVERGENiHBG054878.
InParanoidiQ9Y5E4.
KOiK16494.
OMAiAPRRSGM.
OrthoDBiEOG7KSX80.
PhylomeDBiQ9Y5E4.
TreeFamiTF332299.

Miscellaneous databases

ChiTaRSiPCDHB5. human.
GeneWikiiPCDHB5.
GenomeRNAii26167.
NextBioi48275.
PROiQ9Y5E4.
SOURCEiSearch...

Gene expression databases

BgeeiQ9Y5E4.
CleanExiHS_PCDHB5.
ExpressionAtlasiQ9Y5E4. baseline and differential.
GenevisibleiQ9Y5E4. HS.

Family and domain databases

Gene3Di2.60.40.60. 5 hits.
InterProiIPR002126. Cadherin.
IPR015919. Cadherin-like.
IPR020894. Cadherin_CS.
IPR013164. Cadherin_N.
IPR030730. PCDHB5.
[Graphical view]
PANTHERiPTHR24028:SF64. PTHR24028:SF64. 1 hit.
PfamiPF00028. Cadherin. 5 hits.
PF08266. Cadherin_2. 1 hit.
[Graphical view]
PRINTSiPR00205. CADHERIN.
SMARTiSM00112. CA. 5 hits.
[Graphical view]
SUPFAMiSSF49313. SSF49313. 5 hits.
PROSITEiPS00232. CADHERIN_1. 5 hits.
PS50268. CADHERIN_2. 6 hits.
[Graphical view]
ProtoNetiSearch...

Publicationsi

« Hide 'large scale' publications
  1. "A striking organization of a large family of human neural cadherin-like cell adhesion genes."
    Wu Q., Maniatis T.
    Cell 97:779-790(1999) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [MRNA].
  2. "Cloning and characterization of a new human cDNA homologous to Rattus norvegicus protocadherin-3 (pcdh3)."
    Ding J.B., Yu L., Zhao S.Y.
    Submitted (MAR-1999) to the EMBL/GenBank/DDBJ databases
    Cited for: NUCLEOTIDE SEQUENCE [MRNA].
  3. "The human and murine protocadherin-beta one-exon gene families show high evolutionary conservation, despite the difference in gene number."
    Vanhalst K., Kools P., Vanden Eynde E., van Roy F.
    FEBS Lett. 495:120-125(2001) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [MRNA].
  4. "The status, quality, and expansion of the NIH full-length cDNA project: the Mammalian Gene Collection (MGC)."
    The MGC Project Team
    Genome Res. 14:2121-2127(2004) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA], VARIANT PRO-720.
    Tissue: Muscle.
  5. Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA] OF 95-795, VARIANT PRO-720.
    Tissue: Uterus.

Entry informationi

Entry nameiPCDB5_HUMAN
AccessioniPrimary (citable) accession number: Q9Y5E4
Secondary accession number(s): Q549F4, Q9UFU9
Entry historyi
Integrated into UniProtKB/Swiss-Prot: April 27, 2001
Last sequence update: November 1, 1999
Last modified: June 24, 2015
This is version 126 of the entry and version 1 of the sequence. [Complete history]
Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programChordata Protein Annotation Program
DisclaimerAny medical or genetic information present in this entry is provided for research, educational and informational purposes only. It is not in any way intended to be used as a substitute for professional medical advice, diagnosis, treatment or care.

Miscellaneousi

Keywords - Technical termi

Complete proteome, Reference proteome

Documents

  1. Human chromosome 5
    Human chromosome 5: entries, gene names and cross-references to MIM
  2. Human entries with polymorphisms or disease mutations
    List of human entries with polymorphisms or disease mutations
  3. Human polymorphisms and disease mutations
    Index of human polymorphisms and disease mutations
  4. MIM cross-references
    Online Mendelian Inheritance in Man (MIM) cross-references in UniProtKB/Swiss-Prot
  5. SIMILARITY comments
    Index of protein domains and families

External Data

Dasty 3

Similar proteinsi

Links to similar proteins from the UniProt Reference Clusters (UniRef) at 100%, 90% and 50% sequence identity:
100%UniRef100 combines identical sequences and sub-fragments with 11 or more residues from any organism into Uniref entry.
90%UniRef90 is built by clustering UniRef100 sequences that have at least 90% sequence identity to, and 80% overlap with, the longest sequence (a.k.a seed sequence).
50%UniRef50 is built by clustering UniRef90 seed sequences that have at least 50% sequence identity to, and 80% overlap with, the longest sequence in the cluster.