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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)DescriptionActionsGraphical viewLength
Topological domaini29 – 687ExtracellularSequence analysisAdd BLAST659
Transmembranei688 – 708HelicalSequence analysisAdd BLAST21
Topological domaini709 – 927CytoplasmicSequence analysisAdd BLAST219

GO - Cellular componenti

Complete GO annotation...

Keywords - Cellular componenti

Cell membrane, Membrane

Pathology & Biotechi

Organism-specific databases

OpenTargetsiENSG00000254221.
PharmGKBiPA33056.

Polymorphism and mutation databases

BioMutaiPCDHGB1.
DMDMi37999833.

PTM / Processingi

Molecule processing

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Signal peptidei1 – 28Sequence analysisAdd BLAST28
ChainiPRO_000000397229 – 927Protocadherin gamma-B1Add BLAST899

Amino acid modifications

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Glycosylationi41N-linked (GlcNAc...)Sequence analysis1
Glycosylationi73N-linked (GlcNAc...)Sequence analysis1
Glycosylationi300N-linked (GlcNAc...)Sequence analysis1
Glycosylationi415N-linked (GlcNAc...)Sequence analysis1
Glycosylationi541N-linked (GlcNAc...)Sequence analysis1

Keywords - PTMi

Glycoprotein

Proteomic databases

PaxDbiQ9Y5G3.
PeptideAtlasiQ9Y5G3.
PRIDEiQ9Y5G3.
TopDownProteomicsiQ9Y5G3-2. [Q9Y5G3-2]

PTM databases

iPTMnetiQ9Y5G3.
PhosphoSitePlusiQ9Y5G3.

Expressioni

Gene expression databases

BgeeiENSG00000254221.
GenevisibleiQ9Y5G3. HS.

Organism-specific databases

HPAiHPA008755.

Interactioni

Protein-protein interaction databases

BioGridi121044. 68 interactors.
STRINGi9606.ENSP00000429273.

Structurei

3D structure databases

ProteinModelPortaliQ9Y5G3.
SMRiQ9Y5G3.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Domains and Repeats

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Domaini29 – 130Cadherin 1PROSITE-ProRule annotationAdd BLAST102
Domaini131 – 239Cadherin 2PROSITE-ProRule annotationAdd BLAST109
Domaini240 – 343Cadherin 3PROSITE-ProRule annotationAdd BLAST104
Domaini344 – 448Cadherin 4PROSITE-ProRule annotationAdd BLAST105
Domaini449 – 558Cadherin 5PROSITE-ProRule annotationAdd BLAST110
Domaini566 – 671Cadherin 6PROSITE-ProRule annotationAdd BLAST106

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.
InParanoidiQ9Y5G3.
KOiK16496.
OMAiPWGTSVL.
OrthoDBiEOG091G0229.
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)DescriptionActionsGraphical viewLength
Alternative sequenceiVSP_008684804 – 810QAPPNTD → VSFCKSS in isoform 2. 2 Publications7
Alternative sequenceiVSP_008685811 – 927Missing in isoform 2. 2 PublicationsAdd BLAST117

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.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

BioGridi121044. 68 interactors.
STRINGi9606.ENSP00000429273.

PTM databases

iPTMnetiQ9Y5G3.
PhosphoSitePlusiQ9Y5G3.

Polymorphism and mutation databases

BioMutaiPCDHGB1.
DMDMi37999833.

Proteomic databases

PaxDbiQ9Y5G3.
PeptideAtlasiQ9Y5G3.
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.
OpenTargetsiENSG00000254221.
PharmGKBiPA33056.
GenAtlasiSearch...

Phylogenomic databases

eggNOGiKOG3594. Eukaryota.
ENOG410XQHI. LUCA.
GeneTreeiENSGT00840000129690.
HOGENOMiHOG000220892.
HOVERGENiHBG054878.
InParanoidiQ9Y5G3.
KOiK16496.
OMAiPWGTSVL.
OrthoDBiEOG091G0229.
PhylomeDBiQ9Y5G3.
TreeFamiTF332299.

Miscellaneous databases

GenomeRNAii56104.
PROiQ9Y5G3.
SOURCEiSearch...

Gene expression databases

BgeeiENSG00000254221.
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...

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: November 2, 2016
This is version 124 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.