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Protein

Protocadherin gamma-B6

Gene

PCDHGB6

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-B6
Short name:
PCDH-gamma-B6
Gene namesi
Name:PCDHGB6
OrganismiHomo sapiens (Human)
Taxonomic identifieri9606 [NCBI]
Taxonomic lineageiEukaryotaMetazoaChordataCraniataVertebrataEuteleostomiMammaliaEutheriaEuarchontogliresPrimatesHaplorrhiniCatarrhiniHominidaeHomo
Proteomesi
  • UP000005640 Componenti: Chromosome 5

Organism-specific databases

HGNCiHGNC:8713. PCDHGB6.

Subcellular locationi

Topology

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Topological domaini31 – 691ExtracellularSequence analysisAdd BLAST661
Transmembranei692 – 712HelicalSequence analysisAdd BLAST21
Topological domaini713 – 930CytoplasmicSequence analysisAdd BLAST218

GO - Cellular componenti

Complete GO annotation...

Keywords - Cellular componenti

Cell membrane, Membrane

Pathology & Biotechi

Organism-specific databases

DisGeNETi56100.
OpenTargetsiENSG00000253305.
PharmGKBiPA33061.

Polymorphism and mutation databases

BioMutaiPCDHGB6.
DMDMi37999829.

PTM / Processingi

Molecule processing

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Signal peptidei1 – 30Sequence analysisAdd BLAST30
ChainiPRO_000000398131 – 930Protocadherin gamma-B6Add BLAST900

Amino acid modifications

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Glycosylationi304N-linked (GlcNAc...)Sequence analysis1
Glycosylationi419N-linked (GlcNAc...)Sequence analysis1
Glycosylationi545N-linked (GlcNAc...)Sequence analysis1

Keywords - PTMi

Glycoprotein

Proteomic databases

EPDiQ9Y5F9.
PaxDbiQ9Y5F9.
PeptideAtlasiQ9Y5F9.
PRIDEiQ9Y5F9.

PTM databases

iPTMnetiQ9Y5F9.
PhosphoSitePlusiQ9Y5F9.

Expressioni

Gene expression databases

BgeeiENSG00000253305.
GenevisibleiQ9Y5F9. HS.

Organism-specific databases

HPAiHPA008755.

Interactioni

Protein-protein interaction databases

STRINGi9606.ENSP00000428603.

Structurei

3D structure databases

ProteinModelPortaliQ9Y5F9.
SMRiQ9Y5F9.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Domains and Repeats

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Domaini31 – 133Cadherin 1PROSITE-ProRule annotationAdd BLAST103
Domaini134 – 242Cadherin 2PROSITE-ProRule annotationAdd BLAST109
Domaini243 – 347Cadherin 3PROSITE-ProRule annotationAdd BLAST105
Domaini348 – 452Cadherin 4PROSITE-ProRule annotationAdd BLAST105
Domaini453 – 562Cadherin 5PROSITE-ProRule annotationAdd BLAST110
Domaini570 – 675Cadherin 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.
InParanoidiQ9Y5F9.
KOiK16496.
OMAiFSLMVRV.
OrthoDBiEOG091G00SP.
PhylomeDBiQ9Y5F9.
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: Q9Y5F9-1) [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
MGGSCAQRRR AGPRQVLFPL LLPLFYPTLS EPIRYSIPEE LAKGSVVGNL
60 70 80 90 100
AKDLGLSVLD VSARKLRVSA EKLHFSVDAE SGDLLVKNRI DREQICKERR
110 120 130 140 150
RCELQLEAVV ENPLNIFHVI VVIEDVNDHA PQFDKKEIHL EIFESASAGT
160 170 180 190 200
RLSLDPATDP DININSIKDY KINSNPYFSL MVRVNSDGGK YPELSLEKLL
210 220 230 240 250
DREEQRSHSL ILTALDGGDP PRSATAHIEI SVKDTNDNPP VFSRDEYRIS
260 270 280 290 300
LSENLPPGSP VLQVTATDQD EGVNAEINYY FRSTAQSTKH MFSLDEKTGM
310 320 330 340 350
IKNNQSFDFE DVERYTMEVE AKDGGGLSTQ CKVIIEILDE NDNSPEIIIT
360 370 380 390 400
SLSDQILENS PPGMVVALFK TRDLDFGGNG EVRCNIETDI PFKIYSSSNN
410 420 430 440 450
YYKLVTDGAL DREQTPEYNV TIVATDRGKP PLSSSRSITL YVADINDNAP
460 470 480 490 500
VFDQTSYVVH VAENNPPGAS IAQVSASDPD LGLNGHISYS IVASDLEPLA
510 520 530 540 550
VSSYVSVSAQ SGVVFAQRAF DHEQLRAFAL TLQARDHGSP TLSANVSLRV
560 570 580 590 600
LVGDRNDNAP RVLYPALGPD GSAFFDMVPR SAEPGYLVTK VVAVDADSGH
610 620 630 640 650
NAWLSYHVLQ ASEPGLFSLG LRTGEVRTAR ALGDRDAARQ RLLVAVRDGG
660 670 680 690 700
QPPLSATATL HLVFADNLQE ILPDLSDRPV LSDPQAELQF YLVVALALIS
710 720 730 740 750
VLFLLAVILA IALRLRRSLS PATWDCFHPG LCVKSGPVVP PNYSEGTLPY
760 770 780 790 800
SYNLCIAHTG TKEFNFLKCS VPLHSNEDMV CSVSPGALIP PHGGEDLTSH
810 820 830 840 850
PETLTSQAPP NTDWRFSQAQ RPGTSGSQNG DDTGTWPNNQ FDTEMLQAMI
860 870 880 890 900
LASASEAADG SSTLGGGAGT MGLSARYGPQ FTLQHVPDYR QNVYIPGSNA
910 920 930
TLTNAAGKRD GKAPAGGNGN KKKSGKKEKK
Length:930
Mass (Da):101,043
Last modified:November 1, 1999 - v1
Checksum:i274409FD35D18E6E
GO
Isoform 2 (identifier: Q9Y5F9-2) [UniParc]FASTAAdd to basket
Also known as: Short

The sequence of this isoform differs from the canonical sequence as follows:
     807-820: QAPPNTDWRFSQAQ → VSFSFLCVIYLIVY
     821-930: Missing.

Show »
Length:820
Mass (Da):89,765
Checksum:i83370B01C3D7F883
GO

Natural variant

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Natural variantiVAR_021883684P → S.Corresponds to variant rs3749768dbSNPEnsembl.1
Natural variantiVAR_021884722A → T.Corresponds to variant rs3749767dbSNPEnsembl.1
Natural variantiVAR_048572775S → A.Corresponds to variant rs6891442dbSNPEnsembl.1

Alternative sequence

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Alternative sequenceiVSP_008694807 – 820QAPPN…FSQAQ → VSFSFLCVIYLIVY in isoform 2. 1 PublicationAdd BLAST14
Alternative sequenceiVSP_008695821 – 930Missing in isoform 2. 1 PublicationAdd BLAST110

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AF152335 mRNA. Translation: AAD43729.1.
AF152522 mRNA. Translation: AAD43782.1.
CCDSiCCDS54929.1. [Q9Y5F9-1]
CCDS75342.1. [Q9Y5F9-2]
RefSeqiNP_061749.1. NM_018926.2. [Q9Y5F9-1]
NP_115271.1. NM_032100.1. [Q9Y5F9-2]
UniGeneiHs.368160.

Genome annotation databases

EnsembliENST00000520790; ENSP00000428603; ENSG00000253305. [Q9Y5F9-1]
ENST00000616430; ENSP00000479143; ENSG00000253305. [Q9Y5F9-2]
GeneIDi56100.
KEGGihsa:56100.
UCSCiuc003lki.2. human. [Q9Y5F9-1]

Keywords - Coding sequence diversityi

Alternative splicing, Polymorphism

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AF152335 mRNA. Translation: AAD43729.1.
AF152522 mRNA. Translation: AAD43782.1.
CCDSiCCDS54929.1. [Q9Y5F9-1]
CCDS75342.1. [Q9Y5F9-2]
RefSeqiNP_061749.1. NM_018926.2. [Q9Y5F9-1]
NP_115271.1. NM_032100.1. [Q9Y5F9-2]
UniGeneiHs.368160.

3D structure databases

ProteinModelPortaliQ9Y5F9.
SMRiQ9Y5F9.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

STRINGi9606.ENSP00000428603.

PTM databases

iPTMnetiQ9Y5F9.
PhosphoSitePlusiQ9Y5F9.

Polymorphism and mutation databases

BioMutaiPCDHGB6.
DMDMi37999829.

Proteomic databases

EPDiQ9Y5F9.
PaxDbiQ9Y5F9.
PeptideAtlasiQ9Y5F9.
PRIDEiQ9Y5F9.

Protocols and materials databases

DNASUi56100.
Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsembliENST00000520790; ENSP00000428603; ENSG00000253305. [Q9Y5F9-1]
ENST00000616430; ENSP00000479143; ENSG00000253305. [Q9Y5F9-2]
GeneIDi56100.
KEGGihsa:56100.
UCSCiuc003lki.2. human. [Q9Y5F9-1]

Organism-specific databases

CTDi56100.
DisGeNETi56100.
GeneCardsiPCDHGB6.
HGNCiHGNC:8713. PCDHGB6.
HPAiHPA008755.
MIMi604968. gene.
606303. gene.
neXtProtiNX_Q9Y5F9.
OpenTargetsiENSG00000253305.
PharmGKBiPA33061.
GenAtlasiSearch...

Phylogenomic databases

eggNOGiKOG3594. Eukaryota.
ENOG410XQHI. LUCA.
GeneTreeiENSGT00840000129690.
HOGENOMiHOG000220892.
HOVERGENiHBG054878.
InParanoidiQ9Y5F9.
KOiK16496.
OMAiFSLMVRV.
OrthoDBiEOG091G00SP.
PhylomeDBiQ9Y5F9.
TreeFamiTF332299.

Miscellaneous databases

GenomeRNAii56100.
PROiQ9Y5F9.
SOURCEiSearch...

Gene expression databases

BgeeiENSG00000253305.
GenevisibleiQ9Y5F9. 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 nameiPCDGI_HUMAN
AccessioniPrimary (citable) accession number: Q9Y5F9
Secondary accession number(s): Q9Y5C5
Entry historyi
Integrated into UniProtKB/Swiss-Prot: October 24, 2003
Last sequence update: November 1, 1999
Last modified: November 30, 2016
This is version 134 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.