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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)LengthDescriptionGraphical viewFeature identifierActions
Topological domaini30 – 697668ExtracellularSequence analysisAdd
BLAST
Transmembranei698 – 71821HelicalSequence analysisAdd
BLAST
Topological domaini719 – 950232CytoplasmicSequence analysisAdd
BLAST

GO - Cellular componenti

Complete GO annotation...

Keywords - Cellular componenti

Cell membrane, Membrane

Pathology & Biotechi

Organism-specific databases

PharmGKBiPA33013.

Polymorphism and mutation databases

BioMutaiPCDHA13.
DMDMi13878431.

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Signal peptidei1 – 2929Sequence analysisAdd
BLAST
Chaini30 – 950921Protocadherin alpha-13PRO_0000003908Add
BLAST

Amino acid modifications

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Glycosylationi257 – 2571N-linked (GlcNAc...)Sequence analysis
Glycosylationi265 – 2651N-linked (GlcNAc...)Sequence analysis
Glycosylationi548 – 5481N-linked (GlcNAc...)Sequence analysis

Keywords - PTMi

Glycoprotein

Proteomic databases

MaxQBiQ9Y5I0.
PaxDbiQ9Y5I0.
PeptideAtlasiQ9Y5I0.
PRIDEiQ9Y5I0.

PTM databases

iPTMnetiQ9Y5I0.
PhosphoSiteiQ9Y5I0.

Expressioni

Gene expression databases

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

Interactioni

Protein-protein interaction databases

BioGridi121076. 3 interactions.
IntActiQ9Y5I0. 1 interaction.
MINTiMINT-7969616.
STRINGi9606.ENSP00000289272.

Structurei

3D structure databases

ProteinModelPortaliQ9Y5I0.
SMRiQ9Y5I0. Positions 27-681.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Domains and Repeats

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Domaini34 – 133100Cadherin 1PROSITE-ProRule annotationAdd
BLAST
Domaini134 – 242109Cadherin 2PROSITE-ProRule annotationAdd
BLAST
Domaini243 – 350108Cadherin 3PROSITE-ProRule annotationAdd
BLAST
Domaini351 – 455105Cadherin 4PROSITE-ProRule annotationAdd
BLAST
Domaini456 – 565110Cadherin 5PROSITE-ProRule annotationAdd
BLAST
Domaini581 – 67898Cadherin 6PROSITE-ProRule annotationAdd
BLAST
Repeati734 – 7374PXXP 1
Repeati774 – 7774PXXP 2
Repeati799 – 8024PXXP 3
Repeati832 – 8354PXXP 4
Repeati873 – 8764PXXP 5
Repeati891 – 8944PXXP 6

Region

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Regioni734 – 8941616 X 4 AA repeats of P-X-X-PAdd
BLAST

Compositional bias

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Compositional biasi923 – 9308Poly-Lys

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.
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)LengthDescriptionGraphical viewFeature identifierActions
Alternative sequencei799 – 8079PRQPNPDWR → VSLYFKKLS in isoform 2. 1 PublicationVSP_000697
Alternative sequencei808 – 950143Missing in isoform 2. 1 PublicationVSP_000698Add
BLAST

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. Positions 27-681.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

BioGridi121076. 3 interactions.
IntActiQ9Y5I0. 1 interaction.
MINTiMINT-7969616.
STRINGi9606.ENSP00000289272.

PTM databases

iPTMnetiQ9Y5I0.
PhosphoSiteiQ9Y5I0.

Polymorphism and mutation databases

BioMutaiPCDHA13.
DMDMi13878431.

Proteomic databases

MaxQBiQ9Y5I0.
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.
PharmGKBiPA33013.
GenAtlasiSearch...

Phylogenomic databases

eggNOGiKOG3594. Eukaryota.
ENOG410XQHI. LUCA.
GeneTreeiENSGT00840000129695.
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: September 7, 2016
This is version 140 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.