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Protein

Protocadherin beta-2

Gene

PCDHB2

Organism
Homo sapiens (Human)
Status
Reviewed-Annotation score: Annotation score: 4 out of 5-Experimental evidence at protein 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
  • cell adhesion Source: ProtInc
  • homophilic cell adhesion via plasma membrane adhesion molecules Source: InterPro
  • nervous system development Source: ProtInc
  • 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-2
Short name:
PCDH-beta-2
Gene namesi
Name:PCDHB2
OrganismiHomo sapiens (Human)
Taxonomic identifieri9606 [NCBI]
Taxonomic lineageiEukaryotaMetazoaChordataCraniataVertebrataEuteleostomiMammaliaEutheriaEuarchontogliresPrimatesHaplorrhiniCatarrhiniHominidaeHomo
Proteomesi
  • UP000005640 Componenti: Chromosome 5

Organism-specific databases

HGNCiHGNC:8687. PCDHB2.

Subcellular locationi

Topology

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Topological domaini31 – 692662ExtracellularSequence analysisAdd
BLAST
Transmembranei693 – 71321HelicalSequence analysisAdd
BLAST
Topological domaini714 – 79885CytoplasmicSequence analysisAdd
BLAST

GO - Cellular componenti

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

Keywords - Cellular componenti

Cell membrane, Membrane

Pathology & Biotechi

Organism-specific databases

PharmGKBiPA33036.

Polymorphism and mutation databases

BioMutaiPCDHB2.
DMDMi13431378.

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Signal peptidei1 – 3030Sequence analysisAdd
BLAST
Chaini31 – 798768Protocadherin beta-2PRO_0000003916Add
BLAST

Amino acid modifications

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Glycosylationi171 – 1711N-linked (GlcNAc...)Sequence analysis
Modified residuei299 – 2991N6-acetyllysineCombined sources
Glycosylationi420 – 4201N-linked (GlcNAc...)Sequence analysis
Glycosylationi438 – 4381N-linked (GlcNAc...)Sequence analysis
Glycosylationi569 – 5691N-linked (GlcNAc...)Sequence analysis

Keywords - PTMi

Acetylation, Glycoprotein

Proteomic databases

EPDiQ9Y5E7.
PaxDbiQ9Y5E7.
PeptideAtlasiQ9Y5E7.
PRIDEiQ9Y5E7.

PTM databases

iPTMnetiQ9Y5E7.
PhosphoSiteiQ9Y5E7.

Expressioni

Gene expression databases

BgeeiQ9Y5E7.
CleanExiHS_PCDHB2.
ExpressionAtlasiQ9Y5E7. baseline and differential.
GenevisibleiQ9Y5E7. HS.

Organism-specific databases

HPAiHPA007548.

Interactioni

Protein-protein interaction databases

BioGridi121073. 1 interaction.

Structurei

3D structure databases

ProteinModelPortaliQ9Y5E7.
SMRiQ9Y5E7. Positions 35-666.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Domains and Repeats

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Domaini37 – 13599Cadherin 1PROSITE-ProRule annotationAdd
BLAST
Domaini136 – 244109Cadherin 2PROSITE-ProRule annotationAdd
BLAST
Domaini249 – 349101Cadherin 3PROSITE-ProRule annotationAdd
BLAST
Domaini354 – 453100Cadherin 4PROSITE-ProRule annotationAdd
BLAST
Domaini458 – 563106Cadherin 5PROSITE-ProRule annotationAdd
BLAST
Domaini570 – 673104Cadherin 6PROSITE-ProRule annotationAdd
BLAST

Sequence similaritiesi

Contains 6 cadherin domains.PROSITE-ProRule annotation

Keywords - Domaini

Repeat, Signal, Transmembrane, Transmembrane helix

Phylogenomic databases

eggNOGiKOG3594. Eukaryota.
ENOG410XQHI. LUCA.
GeneTreeiENSGT00840000129690.
HOGENOMiHOG000220892.
HOVERGENiHBG054878.
InParanoidiQ9Y5E7.
KOiK16494.
OMAiYVFSQAS.
OrthoDBiEOG7KSX80.
PhylomeDBiQ9Y5E7.
TreeFamiTF332299.

Family and domain databases

Gene3Di2.60.40.60. 5 hits.
InterProiIPR002126. Cadherin.
IPR015919. Cadherin-like.
IPR032455. Cadherin_C.
IPR020894. Cadherin_CS.
IPR013164. Cadherin_N.
IPR030735. PCDHB2/3.
[Graphical view]
PANTHERiPTHR24028:SF77. PTHR24028:SF77. 1 hit.
PfamiPF00028. Cadherin. 5 hits.
PF08266. Cadherin_2. 1 hit.
PF16492. Cadherin_C_2. 1 hit.
[Graphical view]
PRINTSiPR00205. CADHERIN.
SMARTiSM00112. CA. 6 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.

Q9Y5E7-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MEAGEGKERV PKQRQVLIFF VLLGIAQASC QPRHYSVAEE TESGSFVANL
60 70 80 90 100
LKDLGLEIGE LAVRGARVVS KGKKMHLQFD RQTGDLLLNE KLDREELCGP
110 120 130 140 150
TEPCVLPFQV LLENPLQFFQ AELRIRDVND HSPVFLDKEI LLKIPESITP
160 170 180 190 200
GTTFLIERAQ DLDVGTNSLQ NYTISPNFHF HLNLQDSLDG IILPQLVLNR
210 220 230 240 250
ALDREEQPEI RLTLTALDGG SPPRSGTALV RIEVVDINDN VPEFAKLLYE
260 270 280 290 300
VQIPEDSPVG SQVAIVSARD LDIGTNGEIS YAFSQASEDI RKTFRLSAKS
310 320 330 340 350
GELLLRQKLD FESIQTYTVN IQATDGGGLS GTCVVFVQVM DLNDNPPELT
360 370 380 390 400
MSTLINQIPE NLQDTLIAVF SVSDPDSGDN GRMVCSIQDD LPFFLKPSVE
410 420 430 440 450
NFYTLVISTA LDRETRSEYN ITITVTDFGT PRLKTEHNIT VLVSDVNDNA
460 470 480 490 500
PAFTQTSYTL FVRENNSPAL HIGSVSATDR DSGTNAQVTY SLLPPQDPHL
510 520 530 540 550
PLASLVSINA DNGHLFALQS LDYEALQAFE FRVGAADRGS PALSSEALVR
560 570 580 590 600
VLVLDANDNS PFVLYPLQNG SAPCTELVPR AAEPGYLVTK VVAVDGDSGQ
610 620 630 640 650
NAWLSYQLLK ATEPGLFGVW AHNGEVRTAR LLRERDAAKQ RLVVLVKDNG
660 670 680 690 700
EPPRSATATL HVLLVDGFSQ PYLLLPEAAP AQAQADLLTV YLVVALASVS
710 720 730 740 750
SLFLFSVLLF VAVRLCRRSR AASVGRCSVP EGPFPGQMVD VSGTGTLSQS
760 770 780 790
YQYEVCLTGG SGTNEFKFLK PIIPNFVAQG AERVSEANPS FRKSFEFT
Length:798
Mass (Da):87,254
Last modified:November 1, 1999 - v1
Checksum:iB2602E865378CB27
GO

Natural variant

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Natural varianti128 – 1281V → I.
Corresponds to variant rs31853 [ dbSNP | Ensembl ].
VAR_020365
Natural varianti674 – 6741L → P.
Corresponds to variant rs384081 [ dbSNP | Ensembl ].
VAR_033701
Natural varianti760 – 7601G → D.
Corresponds to variant rs1047372 [ dbSNP | Ensembl ].
VAR_033702

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AF152495 mRNA. Translation: AAD43756.1.
AF217756 mRNA. Translation: AAK51623.1.
BC098347 mRNA. Translation: AAH98347.1.
CCDSiCCDS4244.1.
RefSeqiNP_061759.1. NM_018936.3.
UniGeneiHs.533023.

Genome annotation databases

EnsembliENST00000194155; ENSP00000194155; ENSG00000112852.
GeneIDi56133.
KEGGihsa:56133.
UCSCiuc003lil.5. human.

Keywords - Coding sequence diversityi

Polymorphism

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AF152495 mRNA. Translation: AAD43756.1.
AF217756 mRNA. Translation: AAK51623.1.
BC098347 mRNA. Translation: AAH98347.1.
CCDSiCCDS4244.1.
RefSeqiNP_061759.1. NM_018936.3.
UniGeneiHs.533023.

3D structure databases

ProteinModelPortaliQ9Y5E7.
SMRiQ9Y5E7. Positions 35-666.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

BioGridi121073. 1 interaction.

PTM databases

iPTMnetiQ9Y5E7.
PhosphoSiteiQ9Y5E7.

Polymorphism and mutation databases

BioMutaiPCDHB2.
DMDMi13431378.

Proteomic databases

EPDiQ9Y5E7.
PaxDbiQ9Y5E7.
PeptideAtlasiQ9Y5E7.
PRIDEiQ9Y5E7.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsembliENST00000194155; ENSP00000194155; ENSG00000112852.
GeneIDi56133.
KEGGihsa:56133.
UCSCiuc003lil.5. human.

Organism-specific databases

CTDi56133.
GeneCardsiPCDHB2.
HGNCiHGNC:8687. PCDHB2.
HPAiHPA007548.
MIMi604967. gene.
606328. gene.
neXtProtiNX_Q9Y5E7.
PharmGKBiPA33036.
GenAtlasiSearch...

Phylogenomic databases

eggNOGiKOG3594. Eukaryota.
ENOG410XQHI. LUCA.
GeneTreeiENSGT00840000129690.
HOGENOMiHOG000220892.
HOVERGENiHBG054878.
InParanoidiQ9Y5E7.
KOiK16494.
OMAiYVFSQAS.
OrthoDBiEOG7KSX80.
PhylomeDBiQ9Y5E7.
TreeFamiTF332299.

Miscellaneous databases

GeneWikiiPCDHB2.
GenomeRNAii56133.
NextBioi61664.
PROiQ9Y5E7.
SOURCEiSearch...

Gene expression databases

BgeeiQ9Y5E7.
CleanExiHS_PCDHB2.
ExpressionAtlasiQ9Y5E7. baseline and differential.
GenevisibleiQ9Y5E7. HS.

Family and domain databases

Gene3Di2.60.40.60. 5 hits.
InterProiIPR002126. Cadherin.
IPR015919. Cadherin-like.
IPR032455. Cadherin_C.
IPR020894. Cadherin_CS.
IPR013164. Cadherin_N.
IPR030735. PCDHB2/3.
[Graphical view]
PANTHERiPTHR24028:SF77. PTHR24028:SF77. 1 hit.
PfamiPF00028. Cadherin. 5 hits.
PF08266. Cadherin_2. 1 hit.
PF16492. Cadherin_C_2. 1 hit.
[Graphical view]
PRINTSiPR00205. CADHERIN.
SMARTiSM00112. CA. 6 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. "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].
  3. "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].
  4. "Lysine acetylation targets protein complexes and co-regulates major cellular functions."
    Choudhary C., Kumar C., Gnad F., Nielsen M.L., Rehman M., Walther T.C., Olsen J.V., Mann M.
    Science 325:834-840(2009) [PubMed] [Europe PMC] [Abstract]
    Cited for: ACETYLATION [LARGE SCALE ANALYSIS] AT LYS-299, IDENTIFICATION BY MASS SPECTROMETRY [LARGE SCALE ANALYSIS].

Entry informationi

Entry nameiPCDB2_HUMAN
AccessioniPrimary (citable) accession number: Q9Y5E7
Secondary accession number(s): Q4KMU1
Entry historyi
Integrated into UniProtKB/Swiss-Prot: April 27, 2001
Last sequence update: November 1, 1999
Last modified: May 11, 2016
This is version 131 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

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 one 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.