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Protein

Protocadherin gamma-B1

Gene

PCDHGB1

Organism
Homo sapiens (Human)
Status
Reviewed-Annotation score: Annotation score: 3 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

Complete GO annotation...

Keywords - Biological processi

Cell adhesion

Keywords - Ligandi

Calcium

Names & Taxonomyi

Protein namesi
Recommended name:
Protocadherin gamma-B1
Short name:
PCDH-gamma-B1
Gene namesi
Name:PCDHGB1
OrganismiHomo sapiens (Human)
Taxonomic identifieri9606 [NCBI]
Taxonomic lineageiEukaryotaMetazoaChordataCraniataVertebrataEuteleostomiMammaliaEutheriaEuarchontogliresPrimatesHaplorrhiniCatarrhiniHominidaeHomo
Proteomesi
  • UP000005640 Componenti: Chromosome 5

Organism-specific databases

HGNCiHGNC:8708. PCDHGB1.

Subcellular locationi

Topology

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Topological domaini29 – 687659ExtracellularSequence analysisAdd
BLAST
Transmembranei688 – 70821HelicalSequence analysisAdd
BLAST
Topological domaini709 – 927219CytoplasmicSequence analysisAdd
BLAST

GO - Cellular componenti

Complete GO annotation...

Keywords - Cellular componenti

Cell membrane, Membrane

Pathology & Biotechi

Organism-specific databases

PharmGKBiPA33056.

Polymorphism and mutation databases

BioMutaiPCDHGB1.
DMDMi37999833.

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Signal peptidei1 – 2828Sequence analysisAdd
BLAST
Chaini29 – 927899Protocadherin gamma-B1PRO_0000003972Add
BLAST

Amino acid modifications

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Glycosylationi41 – 411N-linked (GlcNAc...)Sequence analysis
Glycosylationi73 – 731N-linked (GlcNAc...)Sequence analysis
Glycosylationi300 – 3001N-linked (GlcNAc...)Sequence analysis
Glycosylationi415 – 4151N-linked (GlcNAc...)Sequence analysis
Glycosylationi541 – 5411N-linked (GlcNAc...)Sequence analysis

Keywords - PTMi

Glycoprotein

Proteomic databases

MaxQBiQ9Y5G3.
PaxDbiQ9Y5G3.
PRIDEiQ9Y5G3.
TopDownProteomicsiQ9Y5G3-2. [Q9Y5G3-2]

PTM databases

iPTMnetiQ9Y5G3.
PhosphoSiteiQ9Y5G3.

Expressioni

Gene expression databases

BgeeiQ9Y5G3.
GenevisibleiQ9Y5G3. HS.

Organism-specific databases

HPAiHPA008755.

Interactioni

Protein-protein interaction databases

BioGridi121044. 68 interactions.
STRINGi9606.ENSP00000429273.

Structurei

3D structure databases

ProteinModelPortaliQ9Y5G3.
SMRiQ9Y5G3. Positions 28-682.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Domains and Repeats

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Domaini29 – 130102Cadherin 1PROSITE-ProRule annotationAdd
BLAST
Domaini131 – 239109Cadherin 2PROSITE-ProRule annotationAdd
BLAST
Domaini240 – 343104Cadherin 3PROSITE-ProRule annotationAdd
BLAST
Domaini344 – 448105Cadherin 4PROSITE-ProRule annotationAdd
BLAST
Domaini449 – 558110Cadherin 5PROSITE-ProRule annotationAdd
BLAST
Domaini566 – 671106Cadherin 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.
GeneTreeiENSGT00840000129695.
HOGENOMiHOG000220892.
HOVERGENiHBG054878.
InParanoidiQ9Y5G3.
KOiK16496.
OMAiPWGTSVL.
OrthoDBiEOG7J70DX.
PhylomeDBiQ9Y5G3.
TreeFamiTF332299.

Family and domain databases

Gene3Di2.60.40.60. 6 hits.
InterProiIPR002126. Cadherin.
IPR015919. Cadherin-like.
IPR032455. Cadherin_C.
IPR031904. Cadherin_CBD.
IPR020894. Cadherin_CS.
IPR013164. Cadherin_N.
[Graphical view]
PfamiPF00028. Cadherin. 5 hits.
PF08266. Cadherin_2. 1 hit.
PF16492. Cadherin_C_2. 1 hit.
PF15974. Cadherin_tail. 1 hit.
[Graphical view]
PRINTSiPR00205. CADHERIN.
SMARTiSM00112. CA. 6 hits.
[Graphical view]
SUPFAMiSSF49313. SSF49313. 6 hits.
PROSITEiPS00232. CADHERIN_1. 5 hits.
PS50268. CADHERIN_2. 6 hits.
[Graphical view]

Sequences (2)i

Sequence statusi: Complete.

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

This entry describes 2 isoformsi produced by alternative splicing. AlignAdd to basket

Isoform 1 (identifier: Q9Y5G3-1) [UniParc]FASTAAdd to basket

This isoform has been chosen as the 'canonical' sequence. All positional information in this entry refers to it. This is also the sequence that appears in the downloadable versions of the entry.

« Hide

        10         20         30         40         50
MQRAREAEMM KSQVLFPFLL SLFCGAISQQ IRYTIPEELA NGSRVGKLAK
60 70 80 90 100
DLGLSVRELP TRKLRVSAED YFNVSLESGD LLVNGRIDRE KICGRKLECA
110 120 130 140 150
LEFETVAENP MNVFHVVVVI QDINDNAPRF VAKGIDLEIC ESALPGVKFS
160 170 180 190 200
LDSAQDADVE GNSLKLYTIN PNQYFSLSTK ESPDGSKYPV LLLEKPLDRE
210 220 230 240 250
HQSSHRLILT AMDGGDPPLS GTTHIWIRVT DANDNAPVFS QEVYRVSLQE
260 270 280 290 300
NVPWGTSVLR VMATDQDEGI NAEITYAFLN SPISTSLFNL NPNTGDITTN
310 320 330 340 350
GTLDFEETSR YVLSVEAKDG GVHTAHCNVQ IEIVDENDNA PEVTFMSFSN
360 370 380 390 400
QIPEDSDLGT VIALIKVRDK DSGQNGMVTC YTQEEVPFKL ESTSKNYYKL
410 420 430 440 450
VIAGALNREQ TADYNVTIIA TDKGKPALSS RTSITLHISD INDNAPVFHQ
460 470 480 490 500
ASYVVHVSEN NPPGASIAQV SASDPDLGPN GRVSYSILAS DLEPRELLSY
510 520 530 540 550
VSVSPQSGVV FAQRAFDHEQ LRAFELTLQA RDQGSPALSA NVSLRVLVGD
560 570 580 590 600
LNDNAPRVLY PALGPDGSAL FDMVPRAAEP GYLVTKVVAV DADSGHNAWL
610 620 630 640 650
SYHVLQASEP GLFSLGLRTG EVRTARALGD RDAARQRLLV AVRDGGQPPL
660 670 680 690 700
SATATLHLIF ADSLQEVLPD LSDRPEPSDP QTELQFYLVV ALALISVLFL
710 720 730 740 750
LAVILAIALR LRRSSSLDTE GCFQTGLCSK SGPGVPPNHS EGTLPYSYNL
760 770 780 790 800
CIASHSAKTE FNSLNLTPEM APPQDLLCDD PSMVVCASNE DHKIAYDPSL
810 820 830 840 850
SSHQAPPNTD WRFSQAQRPG TSGSQNGDDT GTWPNNQFDT EMLQAMILAS
860 870 880 890 900
ASEAADGSST LGGGAGTMGL SARYGPQFTL QHVPDYRQNV YIPGSNATLT
910 920
NAAGKRDGKA PAGGNGNKKK SGKKEKK
Length:927
Mass (Da):100,360
Last modified:November 1, 1999 - v1
Checksum:i629DE8511F038741
GO
Isoform 2 (identifier: Q9Y5G3-2) [UniParc]FASTAAdd to basket

Also known as: Short

The sequence of this isoform differs from the canonical sequence as follows:
     804-810: QAPPNTD → VSFCKSS
     811-927: Missing.

Show »
Length:810
Mass (Da):88,172
Checksum:iC3E3DCCF84D57A46
GO

Alternative sequence

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Alternative sequencei804 – 8107QAPPNTD → VSFCKSS in isoform 2. 2 PublicationsVSP_008684
Alternative sequencei811 – 927117Missing in isoform 2. 2 PublicationsVSP_008685Add
BLAST

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AF152330 mRNA. Translation: AAD43724.1.
AF152517 mRNA. Translation: AAD43777.1.
CH471062 Genomic DNA. Translation: EAW61955.1.
BC103926 mRNA. Translation: AAI03927.1.
BC103927 mRNA. Translation: AAI03928.1.
CCDSiCCDS54923.1. [Q9Y5G3-1]
CCDS75330.1. [Q9Y5G3-2]
RefSeqiNP_061745.1. NM_018922.2. [Q9Y5G3-1]
NP_115266.1. NM_032095.1. [Q9Y5G3-2]
UniGeneiHs.368160.

Genome annotation databases

EnsembliENST00000523390; ENSP00000429273; ENSG00000254221. [Q9Y5G3-1]
ENST00000611598; ENSP00000478900; ENSG00000254221. [Q9Y5G3-2]
GeneIDi56104.
KEGGihsa:56104.
UCSCiuc003ljo.3. human. [Q9Y5G3-1]

Keywords - Coding sequence diversityi

Alternative splicing

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AF152330 mRNA. Translation: AAD43724.1.
AF152517 mRNA. Translation: AAD43777.1.
CH471062 Genomic DNA. Translation: EAW61955.1.
BC103926 mRNA. Translation: AAI03927.1.
BC103927 mRNA. Translation: AAI03928.1.
CCDSiCCDS54923.1. [Q9Y5G3-1]
CCDS75330.1. [Q9Y5G3-2]
RefSeqiNP_061745.1. NM_018922.2. [Q9Y5G3-1]
NP_115266.1. NM_032095.1. [Q9Y5G3-2]
UniGeneiHs.368160.

3D structure databases

ProteinModelPortaliQ9Y5G3.
SMRiQ9Y5G3. Positions 28-682.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

BioGridi121044. 68 interactions.
STRINGi9606.ENSP00000429273.

PTM databases

iPTMnetiQ9Y5G3.
PhosphoSiteiQ9Y5G3.

Polymorphism and mutation databases

BioMutaiPCDHGB1.
DMDMi37999833.

Proteomic databases

MaxQBiQ9Y5G3.
PaxDbiQ9Y5G3.
PRIDEiQ9Y5G3.
TopDownProteomicsiQ9Y5G3-2. [Q9Y5G3-2]

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsembliENST00000523390; ENSP00000429273; ENSG00000254221. [Q9Y5G3-1]
ENST00000611598; ENSP00000478900; ENSG00000254221. [Q9Y5G3-2]
GeneIDi56104.
KEGGihsa:56104.
UCSCiuc003ljo.3. human. [Q9Y5G3-1]

Organism-specific databases

CTDi56104.
GeneCardsiPCDHGB1.
HGNCiHGNC:8708. PCDHGB1.
HPAiHPA008755.
MIMi604968. gene.
606299. gene.
neXtProtiNX_Q9Y5G3.
PharmGKBiPA33056.
GenAtlasiSearch...

Phylogenomic databases

eggNOGiKOG3594. Eukaryota.
ENOG410XQHI. LUCA.
GeneTreeiENSGT00840000129695.
HOGENOMiHOG000220892.
HOVERGENiHBG054878.
InParanoidiQ9Y5G3.
KOiK16496.
OMAiPWGTSVL.
OrthoDBiEOG7J70DX.
PhylomeDBiQ9Y5G3.
TreeFamiTF332299.

Miscellaneous databases

GenomeRNAii56104.
PROiQ9Y5G3.
SOURCEiSearch...

Gene expression databases

BgeeiQ9Y5G3.
GenevisibleiQ9Y5G3. HS.

Family and domain databases

Gene3Di2.60.40.60. 6 hits.
InterProiIPR002126. Cadherin.
IPR015919. Cadherin-like.
IPR032455. Cadherin_C.
IPR031904. Cadherin_CBD.
IPR020894. Cadherin_CS.
IPR013164. Cadherin_N.
[Graphical view]
PfamiPF00028. Cadherin. 5 hits.
PF08266. Cadherin_2. 1 hit.
PF16492. Cadherin_C_2. 1 hit.
PF15974. Cadherin_tail. 1 hit.
[Graphical view]
PRINTSiPR00205. CADHERIN.
SMARTiSM00112. CA. 6 hits.
[Graphical view]
SUPFAMiSSF49313. SSF49313. 6 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] (ISOFORMS 1 AND 2).
    Tissue: Brain.
  2. Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
  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] (ISOFORM 2).

Entry informationi

Entry nameiPCDGD_HUMAN
AccessioniPrimary (citable) accession number: Q9Y5G3
Secondary accession number(s): Q3SY75, Q9Y5C8
Entry historyi
Integrated into UniProtKB/Swiss-Prot: October 24, 2003
Last sequence update: November 1, 1999
Last modified: June 8, 2016
This is version 120 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. MIM cross-references
    Online Mendelian Inheritance in Man (MIM) cross-references in UniProtKB/Swiss-Prot
  3. 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.