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Protein

Protocadherin beta-4

Gene

PCDHB4

Organism
Homo sapiens (Human)
Status
Reviewed-Annotation score: -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

Keywordsi

Biological processCell adhesion
LigandCalcium

Names & Taxonomyi

Protein namesi
Recommended name:
Protocadherin beta-4
Short name:
PCDH-beta-4
Gene namesi
Name:PCDHB4
OrganismiHomo sapiens (Human)
Taxonomic identifieri9606 [NCBI]
Taxonomic lineageiEukaryotaMetazoaChordataCraniataVertebrataEuteleostomiMammaliaEutheriaEuarchontogliresPrimatesHaplorrhiniCatarrhiniHominidaeHomo
Proteomesi
  • UP000005640 Componenti: Chromosome 5

Organism-specific databases

EuPathDBiHostDB:ENSG00000081818.3
HGNCiHGNC:8689 PCDHB4
MIMi604967 gene
606330 gene
neXtProtiNX_Q9Y5E5

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 domaini28 – 689ExtracellularSequence analysisAdd BLAST662
Transmembranei690 – 710HelicalSequence analysisAdd BLAST21
Topological domaini711 – 795CytoplasmicSequence analysisAdd BLAST85

Keywords - Cellular componenti

Cell membrane, Membrane

Pathology & Biotechi

Organism-specific databases

OpenTargetsiENSG00000081818
PharmGKBiPA33038

Polymorphism and mutation databases

BioMutaiPCDHB4
DMDMi13431376

PTM / Processingi

Molecule processing

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Signal peptidei1 – 27Sequence analysisAdd BLAST27
ChainiPRO_000000392028 – 795Protocadherin beta-4Add BLAST768

Amino acid modifications

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Glycosylationi183N-linked (GlcNAc...) asparagineSequence analysis1
Glycosylationi417N-linked (GlcNAc...) asparagineSequence analysis1
Glycosylationi435N-linked (GlcNAc...) asparagineSequence analysis1
Glycosylationi566N-linked (GlcNAc...) asparagineSequence analysis1

Keywords - PTMi

Glycoprotein

Proteomic databases

EPDiQ9Y5E5
PaxDbiQ9Y5E5
PeptideAtlasiQ9Y5E5
PRIDEiQ9Y5E5
ProteomicsDBi86344
TopDownProteomicsiQ9Y5E5

PTM databases

iPTMnetiQ9Y5E5
PhosphoSitePlusiQ9Y5E5

Expressioni

Gene expression databases

BgeeiENSG00000081818 Expressed in 134 organ(s), highest expression level in C1 segment of cervical spinal cord
CleanExiHS_PCDHB4
GenevisibleiQ9Y5E5 HS

Organism-specific databases

HPAiHPA014466

Interactioni

Protein-protein interaction databases

BioGridi121071, 1 interactor
STRINGi9606.ENSP00000194152

Structurei

3D structure databases

ProteinModelPortaliQ9Y5E5
SMRiQ9Y5E5
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Domains and Repeats

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Domaini34 – 132Cadherin 1PROSITE-ProRule annotationAdd BLAST99
Domaini137 – 241Cadherin 2PROSITE-ProRule annotationAdd BLAST105
Domaini246 – 346Cadherin 3PROSITE-ProRule annotationAdd BLAST101
Domaini351 – 450Cadherin 4PROSITE-ProRule annotationAdd BLAST100
Domaini455 – 560Cadherin 5PROSITE-ProRule annotationAdd BLAST106
Domaini567 – 670Cadherin 6PROSITE-ProRule annotationAdd BLAST104

Keywords - Domaini

Repeat, Signal, Transmembrane, Transmembrane helix

Phylogenomic databases

eggNOGiKOG3594 Eukaryota
ENOG410XQHI LUCA
GeneTreeiENSGT00920000148964
HOGENOMiHOG000220892
HOVERGENiHBG054878
InParanoidiQ9Y5E5
KOiK16494
OMAiTRNHSEG
OrthoDBiEOG091G024L
PhylomeDBiQ9Y5E5
TreeFamiTF332299

Family and domain databases

InterProiView protein in InterPro
IPR002126 Cadherin
IPR015919 Cadherin-like
IPR032455 Cadherin_C
IPR020894 Cadherin_CS
IPR013164 Cadherin_N
IPR030729 PCDHB4
PANTHERiPTHR24028:SF55 PTHR24028:SF55, 1 hit
PfamiView protein in Pfam
PF00028 Cadherin, 5 hits
PF08266 Cadherin_2, 1 hit
PF16492 Cadherin_C_2, 1 hit
PRINTSiPR00205 CADHERIN
SMARTiView protein in SMART
SM00112 CA, 5 hits
SUPFAMiSSF49313 SSF49313, 6 hits
PROSITEiView protein in PROSITE
PS00232 CADHERIN_1, 5 hits
PS50268 CADHERIN_2, 5 hits

Sequencei

Sequence statusi: Complete.

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

Q9Y5E5-1 [UniParc]FASTAAdd to basket
« Hide
        10         20         30         40         50
MKKLGRIHPN RQVLAFILMV FLSQVRLEPI RYSVLEETES GSFVAHLAKD
60 70 80 90 100
LGLGIGELAS RSARVLSDDD KQRLQLDRQT GDLLLREKLD REELCGPIEP
110 120 130 140 150
CVLHFQVFLE MPVQFFQGEL LIQDINDHSP IFPEREVLLK ILENSQPGTL
160 170 180 190 200
FPLLIAEDLD VGSNGLQKYT ISPNSHFHIL TRNHSEGKKY PDLVQDKPLD
210 220 230 240 250
REEQPEFSLT LVALDGGSPP RSGTVMVRIL IMDINDNAPE FVHTPYGVQV
260 270 280 290 300
LENSPLDSPI VRVLARDIDA GNFGSVSYGL FQASDEIKQT FSINEVTGEI
310 320 330 340 350
LLKKKLDFEK IKSYHVEIEA TDGGGLSGKG TVVIEVVDVN DNPPELIISS
360 370 380 390 400
LTSSIPENAP ETVVSIFRIR DRDSGENGKM ICSIPDNLPF ILKPTLKNFY
410 420 430 440 450
TLVTERPLDR ETSAEYNITI AVTDLGTPRL KTQQNITVQV SDVNDNAPAF
460 470 480 490 500
TQTSYTLFVR ENNSPALHIG SVSATDRDSG TNAQVTYSLL PPQDPHLPLA
510 520 530 540 550
SLVSINADNG HLFALRSLDY EALQAFEFRV GASDRGSPAL SSEALVRVLV
560 570 580 590 600
LDTNDNSPFV LYPLQNGSAP CTELVPRAAE PGYLVTKVVA VDGDSGQNAW
610 620 630 640 650
LSYQLLKATE PGLFGVWAHN GEVRTARLLS ERDAAKHRLV VLVKDNGEPP
660 670 680 690 700
RSATATLHVL LVDGFSQPYL PLPEAAPAQA QADSLTVYLV VALASVSSLF
710 720 730 740 750
LFSVLLFVAV RLCRRSRAAS VGRCSVPEGP FPGHLVDVSG TGTLSQSYQY
760 770 780 790
EVCLTGDSGT GEFKFLKPIF PNLLVQDTGR EVKENPKFRN SLVFS
Length:795
Mass (Da):87,270
Last modified:November 1, 1999 - v1
Checksum:i32A521247DD6A56F
GO

Natural variant

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Natural variantiVAR_048548168K → R. Corresponds to variant dbSNP:rs34350292Ensembl.1
Natural variantiVAR_048549255P → L. Corresponds to variant dbSNP:rs3733697Ensembl.1
Natural variantiVAR_048550255P → S. Corresponds to variant dbSNP:rs3733698Ensembl.1
Natural variantiVAR_021878421A → T. Corresponds to variant dbSNP:rs3776099Ensembl.1
Natural variantiVAR_048551553T → A. Corresponds to variant dbSNP:rs246669Ensembl.1

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AF152497 mRNA Translation: AAD43758.1
AF217754 mRNA Translation: AAK51621.1
BC098139 mRNA Translation: AAH98139.1
BC098346 mRNA Translation: AAH98346.1
CCDSiCCDS4246.1
RefSeqiNP_061761.1, NM_018938.3
UniGeneiHs.591250

Genome annotation databases

EnsembliENST00000194152; ENSP00000194152; ENSG00000081818
GeneIDi56131
KEGGihsa:56131
UCSCiuc003lip.3 human

Keywords - Coding sequence diversityi

Polymorphism

Similar proteinsi

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AF152497 mRNA Translation: AAD43758.1
AF217754 mRNA Translation: AAK51621.1
BC098139 mRNA Translation: AAH98139.1
BC098346 mRNA Translation: AAH98346.1
CCDSiCCDS4246.1
RefSeqiNP_061761.1, NM_018938.3
UniGeneiHs.591250

3D structure databases

ProteinModelPortaliQ9Y5E5
SMRiQ9Y5E5
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

BioGridi121071, 1 interactor
STRINGi9606.ENSP00000194152

PTM databases

iPTMnetiQ9Y5E5
PhosphoSitePlusiQ9Y5E5

Polymorphism and mutation databases

BioMutaiPCDHB4
DMDMi13431376

Proteomic databases

EPDiQ9Y5E5
PaxDbiQ9Y5E5
PeptideAtlasiQ9Y5E5
PRIDEiQ9Y5E5
ProteomicsDBi86344
TopDownProteomicsiQ9Y5E5

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsembliENST00000194152; ENSP00000194152; ENSG00000081818
GeneIDi56131
KEGGihsa:56131
UCSCiuc003lip.3 human

Organism-specific databases

CTDi56131
EuPathDBiHostDB:ENSG00000081818.3
GeneCardsiPCDHB4
HGNCiHGNC:8689 PCDHB4
HPAiHPA014466
MIMi604967 gene
606330 gene
neXtProtiNX_Q9Y5E5
OpenTargetsiENSG00000081818
PharmGKBiPA33038
GenAtlasiSearch...

Phylogenomic databases

eggNOGiKOG3594 Eukaryota
ENOG410XQHI LUCA
GeneTreeiENSGT00920000148964
HOGENOMiHOG000220892
HOVERGENiHBG054878
InParanoidiQ9Y5E5
KOiK16494
OMAiTRNHSEG
OrthoDBiEOG091G024L
PhylomeDBiQ9Y5E5
TreeFamiTF332299

Miscellaneous databases

ChiTaRSiPCDHB4 human
GeneWikiiPCDHB4
GenomeRNAii56131
PROiPR:Q9Y5E5
SOURCEiSearch...

Gene expression databases

BgeeiENSG00000081818 Expressed in 134 organ(s), highest expression level in C1 segment of cervical spinal cord
CleanExiHS_PCDHB4
GenevisibleiQ9Y5E5 HS

Family and domain databases

InterProiView protein in InterPro
IPR002126 Cadherin
IPR015919 Cadherin-like
IPR032455 Cadherin_C
IPR020894 Cadherin_CS
IPR013164 Cadherin_N
IPR030729 PCDHB4
PANTHERiPTHR24028:SF55 PTHR24028:SF55, 1 hit
PfamiView protein in Pfam
PF00028 Cadherin, 5 hits
PF08266 Cadherin_2, 1 hit
PF16492 Cadherin_C_2, 1 hit
PRINTSiPR00205 CADHERIN
SMARTiView protein in SMART
SM00112 CA, 5 hits
SUPFAMiSSF49313 SSF49313, 6 hits
PROSITEiView protein in PROSITE
PS00232 CADHERIN_1, 5 hits
PS50268 CADHERIN_2, 5 hits
ProtoNetiSearch...

Entry informationi

Entry nameiPCDB4_HUMAN
AccessioniPrimary (citable) accession number: Q9Y5E5
Secondary accession number(s): Q4V761
Entry historyiIntegrated into UniProtKB/Swiss-Prot: April 27, 2001
Last sequence update: November 1, 1999
Last modified: September 12, 2018
This is version 151 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 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
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Main funding by: National Institutes of Health

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