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Protein

Protocadherin alpha-4

Gene

PCDHA4

Organism
Homo sapiens (Human)
Status
Reviewed-Annotation score: -Experimental evidence at protein leveli

Functioni

Calcium-dependent cell-adhesion protein involved in cells self-recognition and non-self discrimination. Thereby, it is involved in the establishment and maintenance of specific neuronal connections in the brain.By similarity

GO - Molecular functioni

GO - Biological processi

  • cell adhesion Source: GO_Central
  • homophilic cell adhesion via plasma membrane adhesion molecules Source: InterPro
  • nervous system development Source: ProtInc

Keywordsi

Biological processCell adhesion
LigandCalcium, Metal-binding

Names & Taxonomyi

Protein namesi
Recommended name:
Protocadherin alpha-4Curated
Short name:
PCDH-alpha-4Curated
Gene namesi
Name:PCDHA4Imported
OrganismiHomo sapiens (Human)
Taxonomic identifieri9606 [NCBI]
Taxonomic lineageiEukaryotaMetazoaChordataCraniataVertebrataEuteleostomiMammaliaEutheriaEuarchontogliresPrimatesHaplorrhiniCatarrhiniHominidaeHomo
Proteomesi
  • UP000005640 Componenti: Chromosome 5

Organism-specific databases

EuPathDBiHostDB:ENSG00000204967.10
HGNCiHGNC:8670 PCDHA4
MIMi604966 gene
606310 gene
neXtProtiNX_Q9UN74

Subcellular locationi

Extracellular region or secreted Cytosol Plasma membrane Cytoskeleton Lysosome Endosome Peroxisome ER Golgi apparatus Nucleus Mitochondrion Manual annotation Automatic computational assertionGraphics by Christian Stolte; Source: COMPARTMENTS

Topology

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Topological domaini30 – 697ExtracellularBy similarityAdd BLAST668
Transmembranei698 – 718HelicalSequence analysisAdd BLAST21
Topological domaini719 – 947CytoplasmicBy similarityAdd BLAST229

Keywords - Cellular componenti

Cell membrane, Membrane

Pathology & Biotechi

Organism-specific databases

OpenTargetsiENSG00000204967
PharmGKBiPA33016

Polymorphism and mutation databases

BioMutaiPCDHA4
DMDMi13878424

PTM / Processingi

Molecule processing

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Signal peptidei1 – 29Sequence analysisAdd BLAST29
ChainiPRO_000000389030 – 947Protocadherin alpha-4Add BLAST918

Amino acid modifications

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Disulfide bondi96 ↔ 102By similarity
Glycosylationi139N-linked (GlcNAc...) asparagineSequence analysis1
Glycosylationi257N-linked (GlcNAc...) asparagineSequence analysis1
Glycosylationi265N-linked (GlcNAc...) asparagineSequence analysis1
Glycosylationi548N-linked (GlcNAc...) asparagineSequence analysis1

Keywords - PTMi

Disulfide bond, Glycoprotein

Proteomic databases

EPDiQ9UN74
PaxDbiQ9UN74
PeptideAtlasiQ9UN74
PRIDEiQ9UN74
ProteomicsDBi85264
85265 [Q9UN74-2]
TopDownProteomicsiQ9UN74-2 [Q9UN74-2]

PTM databases

iPTMnetiQ9UN74
PhosphoSitePlusiQ9UN74

Expressioni

Gene expression databases

BgeeiENSG00000204967 Expressed in 64 organ(s), highest expression level in body of pancreas
ExpressionAtlasiQ9UN74 baseline and differential
GenevisibleiQ9UN74 HS

Organism-specific databases

HPAiHPA043180
HPA073478

Interactioni

Subunit structurei

Forms homodimers in trans (molecules expressed by two different cells). Forms promiscuous heterodimers in cis (at the plasma membrane of the same cell) with other protocadherins. Interacts with FYN.By similarity

Binary interactionsi

WithEntry#Exp.IntActNotes
SGTAO437653EBI-712273,EBI-347996

GO - Molecular functioni

Protein-protein interaction databases

BioGridi121084, 41 interactors
IntActiQ9UN74, 15 interactors
STRINGi9606.ENSP00000435300

Structurei

3D structure databases

ProteinModelPortaliQ9UN74
SMRiQ9UN74
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Domains and Repeats

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Domaini30 – 133Cadherin 1PROSITE-ProRule annotationAdd BLAST104
Domaini134 – 242Cadherin 2PROSITE-ProRule annotationAdd BLAST109
Domaini243 – 350Cadherin 3PROSITE-ProRule annotationAdd BLAST108
Domaini351 – 455Cadherin 4PROSITE-ProRule annotationAdd BLAST105
Domaini456 – 565Cadherin 5PROSITE-ProRule annotationAdd BLAST110
Domaini588 – 678Cadherin 6PROSITE-ProRule annotationAdd BLAST91
Repeati734 – 737PXXP 14
Repeati774 – 777PXXP 24
Repeati796 – 799PXXP 34
Repeati829 – 832PXXP 44
Repeati870 – 873PXXP 54
Repeati888 – 891PXXP 64

Region

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Regioni734 – 8916 X 4 AA repeats of P-X-X-PAdd BLAST158
Regioni738 – 947Required for interaction with FYNBy similarityAdd BLAST210

Compositional bias

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Compositional biasi920 – 927Poly-LysSequence analysis8

Domaini

Cadherin 1 to cadherin 4 domains mediate homophilic trans-interaction, the interaction with an identical protocadherin expressed by a neighboring cell. This is a head-to-tail interaction, the cadherin 1 domain interacting with the cadherin 4 domain and the cadherin 2 domain interacting the cadherin 3 domain of the other protocadherin. The cadherin 6 domain mediates promiscuous interactions with protocadherins on the same cell membrane. Each cadherin domain binds three calcium ions.By similarity

Keywords - Domaini

Repeat, Signal, Transmembrane, Transmembrane helix

Phylogenomic databases

eggNOGiKOG3594 Eukaryota
ENOG410XQHI LUCA
GeneTreeiENSGT00920000148958
HOGENOMiHOG000220892
HOVERGENiHBG054878
InParanoidiQ9UN74
KOiK16493
OMAiIMVKGYI
OrthoDBiEOG091G00KR
PhylomeDBiQ9UN74
TreeFamiTF332299

Family and domain databases

InterProiView protein in InterPro
IPR002126 Cadherin-like_dom
IPR015919 Cadherin-like_sf
IPR031904 Cadherin_CBD
IPR020894 Cadherin_CS
IPR013164 Cadherin_N
PfamiView protein in Pfam
PF00028 Cadherin, 5 hits
PF08266 Cadherin_2, 1 hit
PF15974 Cadherin_tail, 1 hit
PRINTSiPR00205 CADHERIN
SMARTiView protein in SMART
SM00112 CA, 6 hits
SUPFAMiSSF49313 SSF49313, 6 hits
PROSITEiView protein in PROSITE
PS00232 CADHERIN_1, 5 hits
PS50268 CADHERIN_2, 6 hits

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

This entry has 2 described isoforms and 2 potential isoforms that are computationally mapped.Show allAlign All

Isoform 1 (identifier: Q9UN74-1) [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
MEFSWGSGQE SRRLLLLLLL LAAWEAGNGQ LHYSVSEEAK HGTFVGRIAQ
60 70 80 90 100
DLGLELAELV PRLFRVASKG RGGLLEVNLQ NGILFVNSRI DREELCRRSA
110 120 130 140 150
ECSIHLEVIV DRPLQVFHVD VEVRDINDNP PVFPATQKNL SIAESRPLDS
160 170 180 190 200
RFPLEGASDA DIGENALLTY RLSPNEYFSL EKPPDDELVK GLGLILRKSL
210 220 230 240 250
DREEAPEIFL VLTATDGGKP ELTGTVQLLI TVLDANDNAP AFDRTIYKVR
260 270 280 290 300
LLENVPNGTL VIKLNASDLD EGLNGDIVYS FSNDISPNVK SKFHIDPITG
310 320 330 340 350
QIIVKGYIDF EESKSYEIIV EGIDKGQLPL SGHCRVIVEV EDNNDNVPDL
360 370 380 390 400
EFKSLSLPIR EDAPLGTVIA LISVSDKDMG VNGLVTCSLT SHVPFKLVST
410 420 430 440 450
FKNYYSLVLD SALDRESVSA YELVVTARDG GSPSLWATAS VSVEVADVND
460 470 480 490 500
NAPAFAQPEY TVFVKENNPP GCHIFTVSAW DADAQENALV SYSLVERRVG
510 520 530 540 550
ERALSSYVSV HAESGKVYAL QPLDHEELEL LQFQVTARDA GVPPLGSNVT
560 570 580 590 600
LQVFVLDEND NAPALLAPRA GGTGGAVSEL VPWSVGVGHV VAKVRAVDAD
610 620 630 640 650
SGYNAWLSYE LQPGTGGARI PFRVGLYTGE ISTTRALDET DAPRHRLLVL
660 670 680 690 700
VKDHGEPALT ATATVLVSLV ESGQAPKASS RALVGAVGPD AALVDVNVYL
710 720 730 740 750
IIAICAVSSL LVLTLLLYTA LRCSALPTEG ACAPGKPTLV CSSAVGSWSY
760 770 780 790 800
SQQRRPRVCS GEGPPKTDLM AFSPSLPDSR DREDQLQTTE ESFAKPRQPN
810 820 830 840 850
PDWRYSASLR AGMHSSVHLE EAGILRAGPG GPDQQWPTVS SATPEPEAGE
860 870 880 890 900
VSPPVGAGVN SNSWTFKYGP GNPKQSGPGE LPDKFIIPGS PAIISIRQEP
910 920 930 940
TNSQIDKSDF ITFGKKEETK KKKKKKKGNK TQEKKEKGNS TTDNSDQ
Length:947
Mass (Da):102,293
Last modified:May 1, 2000 - v1
Checksum:i2B06F20872D731D8
GO
Isoform 2 (identifier: Q9UN74-2) [UniParc]FASTAAdd to basket

The sequence of this isoform differs from the canonical sequence as follows:
     796-798: PRQ → VSV
     799-947: Missing.

Show »
Length:798
Mass (Da):86,158
Checksum:i9EF890C30F48A77F
GO

Computationally mapped potential isoform sequencesi

There are 2 potential isoforms mapped to this entry.BLASTAlignShow allAdd to basket
EntryEntry nameProtein names
Gene namesLengthAnnotation
D6RA20D6RA20_HUMAN
Protocadherin alpha-4
PCDHA4
901Annotation score:
A0A087WSW8A0A087WSW8_HUMAN
Protocadherin alpha-4
PCDHA4
776Annotation score:

Natural variant

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Natural variantiVAR_05918055E → D. Corresponds to variant dbSNP:rs11167605Ensembl.1
Natural variantiVAR_024390184P → S. Corresponds to variant dbSNP:rs3822346Ensembl.1

Alternative sequence

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Alternative sequenceiVSP_000677796 – 798PRQ → VSV in isoform 2. 2 Publications3
Alternative sequenceiVSP_000678799 – 947Missing in isoform 2. 2 PublicationsAdd BLAST149

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AF152312 mRNA Translation: AAD43706.1
AF152482 mRNA Translation: AAD43743.1
AC005609 Genomic DNA Translation: AAC34322.1
BC112102 mRNA Translation: AAI12103.1
BC113609 mRNA Translation: AAI13610.1
CCDSiCCDS54916.1 [Q9UN74-1]
RefSeqiNP_061730.1, NM_018907.3 [Q9UN74-1]
NP_113688.1, NM_031500.2 [Q9UN74-2]
UniGeneiHs.199343

Genome annotation databases

EnsembliENST00000530339; ENSP00000435300; ENSG00000204967 [Q9UN74-1]
ENST00000618834; ENSP00000481220; ENSG00000204967 [Q9UN74-2]
GeneIDi56144
KEGGihsa:56144
UCSCiuc003lhi.4 human [Q9UN74-1]

Keywords - Coding sequence diversityi

Alternative splicing, Polymorphism

Similar proteinsi

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AF152312 mRNA Translation: AAD43706.1
AF152482 mRNA Translation: AAD43743.1
AC005609 Genomic DNA Translation: AAC34322.1
BC112102 mRNA Translation: AAI12103.1
BC113609 mRNA Translation: AAI13610.1
CCDSiCCDS54916.1 [Q9UN74-1]
RefSeqiNP_061730.1, NM_018907.3 [Q9UN74-1]
NP_113688.1, NM_031500.2 [Q9UN74-2]
UniGeneiHs.199343

3D structure databases

ProteinModelPortaliQ9UN74
SMRiQ9UN74
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

BioGridi121084, 41 interactors
IntActiQ9UN74, 15 interactors
STRINGi9606.ENSP00000435300

PTM databases

iPTMnetiQ9UN74
PhosphoSitePlusiQ9UN74

Polymorphism and mutation databases

BioMutaiPCDHA4
DMDMi13878424

Proteomic databases

EPDiQ9UN74
PaxDbiQ9UN74
PeptideAtlasiQ9UN74
PRIDEiQ9UN74
ProteomicsDBi85264
85265 [Q9UN74-2]
TopDownProteomicsiQ9UN74-2 [Q9UN74-2]

Protocols and materials databases

DNASUi56144
Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsembliENST00000530339; ENSP00000435300; ENSG00000204967 [Q9UN74-1]
ENST00000618834; ENSP00000481220; ENSG00000204967 [Q9UN74-2]
GeneIDi56144
KEGGihsa:56144
UCSCiuc003lhi.4 human [Q9UN74-1]

Organism-specific databases

CTDi56144
EuPathDBiHostDB:ENSG00000204967.10
GeneCardsiPCDHA4
HGNCiHGNC:8670 PCDHA4
HPAiHPA043180
HPA073478
MIMi604966 gene
606310 gene
neXtProtiNX_Q9UN74
OpenTargetsiENSG00000204967
PharmGKBiPA33016
GenAtlasiSearch...

Phylogenomic databases

eggNOGiKOG3594 Eukaryota
ENOG410XQHI LUCA
GeneTreeiENSGT00920000148958
HOGENOMiHOG000220892
HOVERGENiHBG054878
InParanoidiQ9UN74
KOiK16493
OMAiIMVKGYI
OrthoDBiEOG091G00KR
PhylomeDBiQ9UN74
TreeFamiTF332299

Miscellaneous databases

GeneWikiiPCDHA4
GenomeRNAii56144
PROiPR:Q9UN74
SOURCEiSearch...

Gene expression databases

BgeeiENSG00000204967 Expressed in 64 organ(s), highest expression level in body of pancreas
ExpressionAtlasiQ9UN74 baseline and differential
GenevisibleiQ9UN74 HS

Family and domain databases

InterProiView protein in InterPro
IPR002126 Cadherin-like_dom
IPR015919 Cadherin-like_sf
IPR031904 Cadherin_CBD
IPR020894 Cadherin_CS
IPR013164 Cadherin_N
PfamiView protein in Pfam
PF00028 Cadherin, 5 hits
PF08266 Cadherin_2, 1 hit
PF15974 Cadherin_tail, 1 hit
PRINTSiPR00205 CADHERIN
SMARTiView protein in SMART
SM00112 CA, 6 hits
SUPFAMiSSF49313 SSF49313, 6 hits
PROSITEiView protein in PROSITE
PS00232 CADHERIN_1, 5 hits
PS50268 CADHERIN_2, 6 hits
ProtoNetiSearch...

Entry informationi

Entry nameiPCDA4_HUMAN
AccessioniPrimary (citable) accession number: Q9UN74
Secondary accession number(s): O75285, Q2M253
Entry historyiIntegrated into UniProtKB/Swiss-Prot: April 27, 2001
Last sequence update: May 1, 2000
Last modified: November 7, 2018
This is version 156 of the entry and version 1 of the sequence. See 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 entries with polymorphisms or disease mutations
    List of human entries with polymorphisms or disease mutations
  2. Human polymorphisms and disease mutations
    Index of human polymorphisms and disease mutations
  3. MIM cross-references
    Online Mendelian Inheritance in Man (MIM) cross-references in UniProtKB/Swiss-Prot
  4. Human chromosome 5
    Human chromosome 5: entries, gene names and cross-references to MIM
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