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Protein

Protocadherin alpha-13

Gene

PCDHA13

Organism
Homo sapiens (Human)
Status
Reviewed-Annotation score: Annotation score: 4 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 alpha-13
Short name:
PCDH-alpha-13
Gene namesi
Name:PCDHA13
Synonyms:CNRS5
OrganismiHomo sapiens (Human)
Taxonomic identifieri9606 [NCBI]
Taxonomic lineageiEukaryotaMetazoaChordataCraniataVertebrataEuteleostomiMammaliaEutheriaEuarchontogliresPrimatesHaplorrhiniCatarrhiniHominidaeHomo
Proteomesi
  • UP000005640 Componenti: Chromosome 5

Organism-specific databases

HGNCiHGNC:8667. PCDHA13.

Subcellular locationi

Topology

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Topological domaini30 – 697ExtracellularSequence analysisAdd BLAST668
Transmembranei698 – 718HelicalSequence analysisAdd BLAST21
Topological domaini719 – 950CytoplasmicSequence analysisAdd BLAST232

GO - Cellular componenti

Complete GO annotation...

Keywords - Cellular componenti

Cell membrane, Membrane

Pathology & Biotechi

Organism-specific databases

OpenTargetsiENSG00000239389.
PharmGKBiPA33013.

Polymorphism and mutation databases

BioMutaiPCDHA13.
DMDMi13878431.

PTM / Processingi

Molecule processing

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Signal peptidei1 – 29Sequence analysisAdd BLAST29
ChainiPRO_000000390830 – 950Protocadherin alpha-13Add BLAST921

Amino acid modifications

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Glycosylationi257N-linked (GlcNAc...)Sequence analysis1
Glycosylationi265N-linked (GlcNAc...)Sequence analysis1
Glycosylationi548N-linked (GlcNAc...)Sequence analysis1

Keywords - PTMi

Glycoprotein

Proteomic databases

PaxDbiQ9Y5I0.
PeptideAtlasiQ9Y5I0.
PRIDEiQ9Y5I0.

PTM databases

iPTMnetiQ9Y5I0.
PhosphoSitePlusiQ9Y5I0.

Expressioni

Gene expression databases

BgeeiENSG00000239389.
ExpressionAtlasiQ9Y5I0. baseline and differential.
GenevisibleiQ9Y5I0. HS.

Interactioni

Protein-protein interaction databases

BioGridi121076. 3 interactors.
IntActiQ9Y5I0. 1 interactor.
MINTiMINT-7969616.
STRINGi9606.ENSP00000289272.

Structurei

3D structure databases

ProteinModelPortaliQ9Y5I0.
SMRiQ9Y5I0.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Domains and Repeats

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Domaini34 – 133Cadherin 1PROSITE-ProRule annotationAdd BLAST100
Domaini134 – 242Cadherin 2PROSITE-ProRule annotationAdd BLAST109
Domaini243 – 350Cadherin 3PROSITE-ProRule annotationAdd BLAST108
Domaini351 – 455Cadherin 4PROSITE-ProRule annotationAdd BLAST105
Domaini456 – 565Cadherin 5PROSITE-ProRule annotationAdd BLAST110
Domaini581 – 678Cadherin 6PROSITE-ProRule annotationAdd BLAST98
Repeati734 – 737PXXP 14
Repeati774 – 777PXXP 24
Repeati799 – 802PXXP 34
Repeati832 – 835PXXP 44
Repeati873 – 876PXXP 54
Repeati891 – 894PXXP 64

Region

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Regioni734 – 8946 X 4 AA repeats of P-X-X-PAdd BLAST161

Compositional bias

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Compositional biasi923 – 930Poly-Lys8

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.
InParanoidiQ9Y5I0.
KOiK16493.
OMAiPIFPESK.
OrthoDBiEOG091G00KR.
PhylomeDBiQ9Y5I0.
TreeFamiTF332299.

Family and domain databases

Gene3Di2.60.40.60. 6 hits.
InterProiIPR002126. Cadherin.
IPR015919. Cadherin-like.
IPR031904. Cadherin_CBD.
IPR020894. Cadherin_CS.
IPR013164. Cadherin_N.
IPR030732. PCDHA13.
[Graphical view]
PANTHERiPTHR24028:SF101. PTHR24028:SF101. 1 hit.
PfamiPF00028. Cadherin. 5 hits.
PF08266. Cadherin_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: Q9Y5I0-1) [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
MLSSWQGGPR PRQLLLWLLI LAAWETGSGQ LHYSVPEEAK HGTFVGRIAQ
60 70 80 90 100
DLGLELAELV PRLFRVASKR HGDLLEVNLQ NGILFVNSRI DREELCGRSA
110 120 130 140 150
ECSIHLEVIV DRPLQVFHVE VKVRDINDNP PIFPESKKRI IIAESRPPET
160 170 180 190 200
RFPLDGASDA DIGVNSALTY RLDPNDYFTL DAQNSLEQMS SLSLVLRKTL
210 220 230 240 250
DREEIQEHSL LLTASDGGKP ELTGTVQLLI TILDVNDNAP EFYQSVYKVT
260 270 280 290 300
VLENAFNGTL VIKLNATDPD DGTNGDIVYS FRRPVWPAVV YAFTINPNNG
310 320 330 340 350
EIRTKGKLDF EEKKLYEISV EAVDKGNIPM AGHCTLLVEV LDVNDNAPEV
360 370 380 390 400
TITSLSLPIR EDTQPSAIIA LISVSDRDSG SNGQVTCTLT PHVPFKLVST
410 420 430 440 450
YKNYYSLVLD SALDRESVSA YELVVTARDG GSPSLWATAS VSVGVADVND
460 470 480 490 500
NAPAFAQPEY TVFVKENNPP GCHIFTVSAQ DADAQENALV SYSLVERRVG
510 520 530 540 550
ERALSSYVSV HAESGKVYAL QPLDHEELEL LQFQVSARDS GVPPLGSNVT
560 570 580 590 600
LQVFVLDEND NAPALLTPGA GSAGGTVSEL MPRSVGAGHV VAKVRAVDAD
610 620 630 640 650
SGYNAWLSYE LQLAAVGARI PFRVGLYTGE ISTTRPLDEV DAPHHRLLVL
660 670 680 690 700
VKDHGEPALT ATATVLLSLV ESGQAPQASS RASAGAVGPE AALVDVNVYL
710 720 730 740 750
IIAICAVSSL LVLTLLLYTA LRCSAPPTEG ACAPGKPTLV CSSAAGSWSY
760 770 780 790 800
SQQRRPRVCS GEGPHKTDLM AFSPSLPPCL GSAEGTGQRE EDSECLKEPR
810 820 830 840 850
QPNPDWRYSA SLRAGMHSSV HLEEAGILRA GPGGPDQQWP TVSSATPEPE
860 870 880 890 900
AGEVSPPVGA GVNSNSWTFK YGPGNPKQSG PGELPDKFII PGSPAIISIR
910 920 930 940 950
QEPTNSQIDK SDFITFGKKE ETKKKKKKKK GNKTQEKKEK GNSTTDNSDQ
Length:950
Mass (Da):102,483
Last modified:November 1, 1999 - v1
Checksum:iF487B3B1AF9D70AB
GO
Isoform 2 (identifier: Q9Y5I0-2) [UniParc]FASTAAdd to basket

The sequence of this isoform differs from the canonical sequence as follows:
     799-807: PRQPNPDWR → VSLYFKKLS
     808-950: Missing.

Show »
Length:807
Mass (Da):87,130
Checksum:i02C2A451574F0616
GO

Alternative sequence

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Alternative sequenceiVSP_000697799 – 807PRQPNPDWR → VSLYFKKLS in isoform 2. 1 Publication9
Alternative sequenceiVSP_000698808 – 950Missing in isoform 2. 1 PublicationAdd BLAST143

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AF152309 mRNA. Translation: AAD43703.1.
AF152478 mRNA. Translation: AAD43739.1.
AC005609 Genomic DNA. Translation: AAC34314.1.
CCDSiCCDS4240.1. [Q9Y5I0-1]
RefSeqiNP_061727.1. NM_018904.2. [Q9Y5I0-1]
NP_114071.1. NM_031865.1. [Q9Y5I0-2]
UniGeneiHs.199343.

Genome annotation databases

EnsembliENST00000289272; ENSP00000289272; ENSG00000239389. [Q9Y5I0-1]
ENST00000617769; ENSP00000479167; ENSG00000239389. [Q9Y5I0-2]
GeneIDi56136.
KEGGihsa:56136.
UCSCiuc003lid.3. human. [Q9Y5I0-1]

Keywords - Coding sequence diversityi

Alternative splicing

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AF152309 mRNA. Translation: AAD43703.1.
AF152478 mRNA. Translation: AAD43739.1.
AC005609 Genomic DNA. Translation: AAC34314.1.
CCDSiCCDS4240.1. [Q9Y5I0-1]
RefSeqiNP_061727.1. NM_018904.2. [Q9Y5I0-1]
NP_114071.1. NM_031865.1. [Q9Y5I0-2]
UniGeneiHs.199343.

3D structure databases

ProteinModelPortaliQ9Y5I0.
SMRiQ9Y5I0.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

BioGridi121076. 3 interactors.
IntActiQ9Y5I0. 1 interactor.
MINTiMINT-7969616.
STRINGi9606.ENSP00000289272.

PTM databases

iPTMnetiQ9Y5I0.
PhosphoSitePlusiQ9Y5I0.

Polymorphism and mutation databases

BioMutaiPCDHA13.
DMDMi13878431.

Proteomic databases

PaxDbiQ9Y5I0.
PeptideAtlasiQ9Y5I0.
PRIDEiQ9Y5I0.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsembliENST00000289272; ENSP00000289272; ENSG00000239389. [Q9Y5I0-1]
ENST00000617769; ENSP00000479167; ENSG00000239389. [Q9Y5I0-2]
GeneIDi56136.
KEGGihsa:56136.
UCSCiuc003lid.3. human. [Q9Y5I0-1]

Organism-specific databases

CTDi56136.
GeneCardsiPCDHA13.
HGNCiHGNC:8667. PCDHA13.
MIMi604966. gene.
606319. gene.
neXtProtiNX_Q9Y5I0.
OpenTargetsiENSG00000239389.
PharmGKBiPA33013.
GenAtlasiSearch...

Phylogenomic databases

eggNOGiKOG3594. Eukaryota.
ENOG410XQHI. LUCA.
GeneTreeiENSGT00850000132246.
HOGENOMiHOG000220892.
HOVERGENiHBG054878.
InParanoidiQ9Y5I0.
KOiK16493.
OMAiPIFPESK.
OrthoDBiEOG091G00KR.
PhylomeDBiQ9Y5I0.
TreeFamiTF332299.

Miscellaneous databases

GenomeRNAii56136.
PROiQ9Y5I0.
SOURCEiSearch...

Gene expression databases

BgeeiENSG00000239389.
ExpressionAtlasiQ9Y5I0. baseline and differential.
GenevisibleiQ9Y5I0. HS.

Family and domain databases

Gene3Di2.60.40.60. 6 hits.
InterProiIPR002126. Cadherin.
IPR015919. Cadherin-like.
IPR031904. Cadherin_CBD.
IPR020894. Cadherin_CS.
IPR013164. Cadherin_N.
IPR030732. PCDHA13.
[Graphical view]
PANTHERiPTHR24028:SF101. PTHR24028:SF101. 1 hit.
PfamiPF00028. Cadherin. 5 hits.
PF08266. Cadherin_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 nameiPCDAD_HUMAN
AccessioniPrimary (citable) accession number: Q9Y5I0
Secondary accession number(s): O75277
Entry historyi
Integrated into UniProtKB/Swiss-Prot: April 27, 2001
Last sequence update: November 1, 1999
Last modified: November 2, 2016
This is version 142 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.