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Protein

Protocadherin beta-13

Gene

PCDHB13

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

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

Keywords - Biological processi

Cell adhesion

Keywords - Ligandi

Calcium

Enzyme and pathway databases

BioCyciZFISH:G66-31375-MONOMER.

Names & Taxonomyi

Protein namesi
Recommended name:
Protocadherin beta-13
Short name:
PCDH-beta-13
Gene namesi
Name:PCDHB13
ORF Names:UNQ332/PRO531
OrganismiHomo sapiens (Human)
Taxonomic identifieri9606 [NCBI]
Taxonomic lineageiEukaryotaMetazoaChordataCraniataVertebrataEuteleostomiMammaliaEutheriaEuarchontogliresPrimatesHaplorrhiniCatarrhiniHominidaeHomo
Proteomesi
  • UP000005640 Componenti: Chromosome 5

Organism-specific databases

HGNCiHGNC:8684. PCDHB13.

Subcellular locationi

Topology

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Topological domaini29 – 690ExtracellularSequence analysisAdd BLAST662
Transmembranei691 – 711HelicalSequence analysisAdd BLAST21
Topological domaini712 – 798CytoplasmicSequence analysisAdd BLAST87

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

OpenTargetsiENSG00000187372.
PharmGKBiPA33029.

Polymorphism and mutation databases

BioMutaiPCDHB13.
DMDMi13431381.

PTM / Processingi

Molecule processing

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Signal peptidei1 – 28Sequence analysisAdd BLAST28
ChainiPRO_000000393829 – 798Protocadherin beta-13Add BLAST770

Amino acid modifications

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Glycosylationi418N-linked (GlcNAc...)Sequence analysis1
Glycosylationi436N-linked (GlcNAc...)Sequence analysis1
Glycosylationi567N-linked (GlcNAc...)Sequence analysis1

Keywords - PTMi

Glycoprotein

Proteomic databases

MaxQBiQ9Y5F0.
PaxDbiQ9Y5F0.
PeptideAtlasiQ9Y5F0.
PRIDEiQ9Y5F0.

PTM databases

iPTMnetiQ9Y5F0.
PhosphoSitePlusiQ9Y5F0.

Expressioni

Gene expression databases

BgeeiENSG00000187372.
CleanExiHS_PCDHB13.
GenevisibleiQ9Y5F0. HS.

Interactioni

Protein-protein interaction databases

BioGridi121063. 1 interactor.

Structurei

3D structure databases

ProteinModelPortaliQ9Y5F0.
SMRiQ9Y5F0.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Domains and Repeats

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Domaini36 – 134Cadherin 1PROSITE-ProRule annotationAdd BLAST99
Domaini139 – 243Cadherin 2PROSITE-ProRule annotationAdd BLAST105
Domaini248 – 348Cadherin 3PROSITE-ProRule annotationAdd BLAST101
Domaini353 – 451Cadherin 4PROSITE-ProRule annotationAdd BLAST99
Domaini456 – 561Cadherin 5PROSITE-ProRule annotationAdd BLAST106
Domaini568 – 671Cadherin 6PROSITE-ProRule annotationAdd BLAST104

Sequence similaritiesi

Contains 6 cadherin domains.PROSITE-ProRule annotation

Keywords - Domaini

Repeat, Signal, Transmembrane, Transmembrane helix

Phylogenomic databases

eggNOGiKOG3594. Eukaryota.
ENOG410XQHI. LUCA.
GeneTreeiENSGT00850000132246.
HOGENOMiHOG000220892.
HOVERGENiHBG054878.
InParanoidiQ9Y5F0.
KOiK16494.
OMAiRSGIAQI.
OrthoDBiEOG091G024L.
PhylomeDBiQ9Y5F0.
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.
[Graphical view]
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. 5 hits.
[Graphical view]

Sequencei

Sequence statusi: Complete.

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

Q9Y5F0-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MEASGKLICR QRQVLFSFLL LGLSLAGAAE PRSYSVVEET EGSSFVTNLA
60 70 80 90 100
KDLGLEQREF SRRGVRVVSR GNKLHLQLNQ ETADLLLNEK LDREDLCGHT
110 120 130 140 150
EPCVLRFQVL LESPFEFFQA ELQVIDINDH SPVFLDKQML VKVSESSPPG
160 170 180 190 200
TTFPLKNAED LDVGQNNIEN YIISPNSYFR VLTRKRSDGR KYPELVLDKA
210 220 230 240 250
LDREEEAELR LTLTALDGGS PPRSGTAQVY IEVLDVNDNA PEFEQPFYRV
260 270 280 290 300
QISEDSPVGF LVVKVSATDV DTGVNGEISY SLFQASEEIG KTFKINPLTG
310 320 330 340 350
EIELKKQLDF EKLQSYEVNI EARDAGTFSG KCTVLIQVID VNDHAPEVTM
360 370 380 390 400
SAFTSPIPEN APETVVALFS VSDLDSGENG KISCSIQEDL PFLLKSAENF
410 420 430 440 450
YTLLTERPLD RESRAEYNIT ITVTDLGTPM LITQLNMTVL IADVNDNAPA
460 470 480 490 500
FTQTSYTLFV RENNSPALHI RSVSATDRDS GTNAQVTYSL LPPQDPHLPL
510 520 530 540 550
TSLVSINADN GHLFALRSLD YEALQGFQFR VGASDHGSPA LSSEALVRVV
560 570 580 590 600
VLDANDNSPF VLYPLQNGSA PCTELVPRAA EPGYLVTKVV AVDGDSGQNA
610 620 630 640 650
WLSYQLLKAT ELGLFGVWAH NGEVRTARLL SERDAAKHRL VVLVKDNGEP
660 670 680 690 700
PRSATATLHV LLVDGFSQPY LPLPEAAPTQ AQADLLTVYL VVALASVSSL
710 720 730 740 750
FLFSVLLFVA VRLCRRSRAA SVGRCLVPEG PLPGHLVDMS GTRTLSQSYQ
760 770 780 790
YEVCLAGGSG TNEFKFLKPI IPNFPPQCPG KEIQGNSTFP NNFGFNIQ
Length:798
Mass (Da):87,552
Last modified:November 1, 1999 - v1
Checksum:i2A478554498B41A3
GO

Experimental Info

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Sequence conflicti705V → E in BAF85510 (PubMed:14702039).Curated1

Natural variant

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Natural variantiVAR_059189471R → G.Corresponds to variant rs2910329dbSNPEnsembl.1

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AF152492 mRNA. Translation: AAD43753.1.
AF217745 mRNA. Translation: AAK51613.1.
AY358427 mRNA. Translation: AAQ88793.1.
AK292821 mRNA. Translation: BAF85510.1.
BC033068 mRNA. Translation: AAH33068.1.
BC051348 mRNA. Translation: AAH51348.1.
BC071934 mRNA. Translation: AAH71934.1.
CCDSiCCDS4255.1.
RefSeqiNP_061756.1. NM_018933.3.
UniGeneiHs.283803.

Genome annotation databases

EnsembliENST00000341948; ENSP00000345491; ENSG00000187372.
GeneIDi56123.
KEGGihsa:56123.
UCSCiuc003lja.3. human.

Keywords - Coding sequence diversityi

Polymorphism

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AF152492 mRNA. Translation: AAD43753.1.
AF217745 mRNA. Translation: AAK51613.1.
AY358427 mRNA. Translation: AAQ88793.1.
AK292821 mRNA. Translation: BAF85510.1.
BC033068 mRNA. Translation: AAH33068.1.
BC051348 mRNA. Translation: AAH51348.1.
BC071934 mRNA. Translation: AAH71934.1.
CCDSiCCDS4255.1.
RefSeqiNP_061756.1. NM_018933.3.
UniGeneiHs.283803.

3D structure databases

ProteinModelPortaliQ9Y5F0.
SMRiQ9Y5F0.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

BioGridi121063. 1 interactor.

PTM databases

iPTMnetiQ9Y5F0.
PhosphoSitePlusiQ9Y5F0.

Polymorphism and mutation databases

BioMutaiPCDHB13.
DMDMi13431381.

Proteomic databases

MaxQBiQ9Y5F0.
PaxDbiQ9Y5F0.
PeptideAtlasiQ9Y5F0.
PRIDEiQ9Y5F0.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsembliENST00000341948; ENSP00000345491; ENSG00000187372.
GeneIDi56123.
KEGGihsa:56123.
UCSCiuc003lja.3. human.

Organism-specific databases

CTDi56123.
GeneCardsiPCDHB13.
HGNCiHGNC:8684. PCDHB13.
MIMi604967. gene.
606339. gene.
neXtProtiNX_Q9Y5F0.
OpenTargetsiENSG00000187372.
PharmGKBiPA33029.
GenAtlasiSearch...

Phylogenomic databases

eggNOGiKOG3594. Eukaryota.
ENOG410XQHI. LUCA.
GeneTreeiENSGT00850000132246.
HOGENOMiHOG000220892.
HOVERGENiHBG054878.
InParanoidiQ9Y5F0.
KOiK16494.
OMAiRSGIAQI.
OrthoDBiEOG091G024L.
PhylomeDBiQ9Y5F0.
TreeFamiTF332299.

Enzyme and pathway databases

BioCyciZFISH:G66-31375-MONOMER.

Miscellaneous databases

GeneWikiiPCDHB13.
GenomeRNAii56123.
PROiQ9Y5F0.
SOURCEiSearch...

Gene expression databases

BgeeiENSG00000187372.
CleanExiHS_PCDHB13.
GenevisibleiQ9Y5F0. 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.
[Graphical view]
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. 5 hits.
[Graphical view]
ProtoNetiSearch...

Entry informationi

Entry nameiPCDBD_HUMAN
AccessioniPrimary (citable) accession number: Q9Y5F0
Secondary accession number(s): A8K9V6
Entry historyi
Integrated into UniProtKB/Swiss-Prot: April 27, 2001
Last sequence update: November 1, 1999
Last modified: November 30, 2016
This is version 143 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.