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Protein

Protocadherin beta-3

Gene

PCDHB3

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

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

Keywords - Biological processi

Cell adhesion

Keywords - Ligandi

Calcium

Names & Taxonomyi

Protein namesi
Recommended name:
Protocadherin beta-3
Short name:
PCDH-beta-3
Gene namesi
Name:PCDHB3
OrganismiHomo sapiens (Human)
Taxonomic identifieri9606 [NCBI]
Taxonomic lineageiEukaryotaMetazoaChordataCraniataVertebrataEuteleostomiMammaliaEutheriaEuarchontogliresPrimatesHaplorrhiniCatarrhiniHominidaeHomo
Proteomesi
  • UP000005640 Componenti: Chromosome 5

Organism-specific databases

HGNCiHGNC:8688. PCDHB3.

Subcellular locationi

Topology

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Topological domaini27 – 690664ExtracellularSequence analysisAdd
BLAST
Transmembranei691 – 71121HelicalSequence analysisAdd
BLAST
Topological domaini712 – 79685CytoplasmicSequence analysisAdd
BLAST

GO - Cellular componenti

  • integral component of membrane Source: UniProtKB
  • integral component of plasma membrane Source: ProtInc
Complete GO annotation...

Keywords - Cellular componenti

Cell membrane, Membrane

Pathology & Biotechi

Organism-specific databases

PharmGKBiPA33037.

Polymorphism and mutation databases

BioMutaiPCDHB3.
DMDMi13431377.

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Signal peptidei1 – 2626Sequence analysisAdd
BLAST
Chaini27 – 796770Protocadherin beta-3PRO_0000003918Add
BLAST

Amino acid modifications

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Glycosylationi169 – 1691N-linked (GlcNAc...)Sequence analysis
Glycosylationi418 – 4181N-linked (GlcNAc...)Sequence analysis
Glycosylationi436 – 4361N-linked (GlcNAc...)Sequence analysis
Glycosylationi567 – 5671N-linked (GlcNAc...)Sequence analysis

Keywords - PTMi

Glycoprotein

Proteomic databases

EPDiQ9Y5E6.
PaxDbiQ9Y5E6.
PRIDEiQ9Y5E6.

PTM databases

iPTMnetiQ9Y5E6.
PhosphoSiteiQ9Y5E6.

Expressioni

Gene expression databases

BgeeiQ9Y5E6.
CleanExiHS_PCDHB3.
ExpressionAtlasiQ9Y5E6. baseline and differential.
GenevisibleiQ9Y5E6. HS.

Organism-specific databases

HPAiHPA050296.

Interactioni

Protein-protein interaction databases

BioGridi121072. 1 interaction.

Structurei

3D structure databases

ProteinModelPortaliQ9Y5E6.
SMRiQ9Y5E6. Positions 33-677.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Domains and Repeats

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Domaini35 – 13399Cadherin 1PROSITE-ProRule annotationAdd
BLAST
Domaini138 – 242105Cadherin 2PROSITE-ProRule annotationAdd
BLAST
Domaini247 – 347101Cadherin 3PROSITE-ProRule annotationAdd
BLAST
Domaini352 – 451100Cadherin 4PROSITE-ProRule annotationAdd
BLAST
Domaini456 – 561106Cadherin 5PROSITE-ProRule annotationAdd
BLAST
Domaini568 – 671104Cadherin 6PROSITE-ProRule annotationAdd
BLAST

Sequence similaritiesi

Contains 6 cadherin domains.PROSITE-ProRule annotation

Keywords - Domaini

Repeat, Signal, Transmembrane, Transmembrane helix

Phylogenomic databases

eggNOGiKOG3594. Eukaryota.
ENOG410XQHI. LUCA.
HOGENOMiHOG000220892.
HOVERGENiHBG054878.
InParanoidiQ9Y5E6.
KOiK16494.
OrthoDBiEOG7KSX80.
PhylomeDBiQ9Y5E6.
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.
IPR030735. PCDHB2/3.
[Graphical view]
PANTHERiPTHR24028:SF77. PTHR24028:SF77. 1 hit.
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. 6 hits.
PROSITEiPS00232. CADHERIN_1. 5 hits.
PS50268. CADHERIN_2. 6 hits.
[Graphical view]

Sequencei

Sequence statusi: Complete.

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

Q9Y5E6-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MEAGGERFLR QRQVLLLFVF LGGSLAGSES RRYSVAEEKE KGFLIANLAK
60 70 80 90 100
DLGLRVEELA ARGAQVVSKG NKQHFQLSHQ TGDLLLNEKL DREELCGPTE
110 120 130 140 150
PCILHFQILL QNPLQFVTNE LRIIDVNDHS PVFFENEMHL KILESTLPGT
160 170 180 190 200
VIPLGNAEDL DVGRNSLQNY TITPNSHFHV LTRSRRDGRK YPELVLDKAL
210 220 230 240 250
DREEQPELSL TLTALDGGSP PRSGTAQINI QVLDINDNAP EFAQPLYEVA
260 270 280 290 300
VLENTPVNSV IVTVSASDLD TGSFGTISYA FFHASEEIRK TFQLNPITGD
310 320 330 340 350
MQLVKYLNFE AINSYEVDIE AKDGGGLSGK STVIVQVVDV NDNPPELTLS
360 370 380 390 400
SVNSPIPENS GETVLAVFSV SDLDSGDNGR VMCSIENNLP FFLKPSVENF
410 420 430 440 450
YTLVSEGALD RETRSEYNIT ITITDLGTPR LKTKYNITVL VSDVNDNAPA
460 470 480 490 500
FTQISYTLFV RENNSPALHI GSVSATDRDS GTNAQVTYSL LPPQDPHLPL
510 520 530 540 550
SSLVSINADN GHLFALRSLD YEALQAFEFR VGATDRGSPA LSSEALVRVL
560 570 580 590 600
VLDANDNSPF VLYPLQNGSA PCTELVPRAA EPGYLVTKVV AVDGDSGQNA
610 620 630 640 650
WLSYQLLKAT EPGLFGVWAH NGEVRTARLL SERDAAKHRL VVLVKDNGEP
660 670 680 690 700
PRSATATLHV LLVDGFSQPY LPLPEAAPAQ AQADLLTVYL VVALASVSSL
710 720 730 740 750
FLFSVLLFVA VRLCRRSRAA SVGRCSVPEG PFPGQMVDVS GTGTLSQSYQ
760 770 780 790
YEVCLTGGSG TNEFKFLKPI IPNFVAQGAE RVSEANPSFR KSFEFS
Length:796
Mass (Da):86,773
Last modified:November 1, 1999 - v1
Checksum:iF586CF1BC3A2B0D2
GO

Natural variant

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Natural varianti41 – 411K → R.
Corresponds to variant rs31849 [ dbSNP | Ensembl ].
VAR_024391
Natural varianti207 – 2071E → K.
Corresponds to variant rs12515688 [ dbSNP | Ensembl ].
VAR_033703
Natural varianti414 – 4141R → S.
Corresponds to variant rs3733699 [ dbSNP | Ensembl ].
VAR_020366

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AF152496 mRNA. Translation: AAD43757.1.
AF217755 mRNA. Translation: AAK51622.1.
AK313451 mRNA. Translation: BAG36239.1.
CH471062 Genomic DNA. Translation: EAW61981.1.
CCDSiCCDS4245.1.
RefSeqiNP_061760.1. NM_018937.4.
UniGeneiHs.508987.
Hs.674730.
Hs.708778.

Genome annotation databases

EnsembliENST00000231130; ENSP00000231130; ENSG00000113205.
GeneIDi56132.
KEGGihsa:56132.
UCSCiuc003lio.5. human.

Keywords - Coding sequence diversityi

Polymorphism

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AF152496 mRNA. Translation: AAD43757.1.
AF217755 mRNA. Translation: AAK51622.1.
AK313451 mRNA. Translation: BAG36239.1.
CH471062 Genomic DNA. Translation: EAW61981.1.
CCDSiCCDS4245.1.
RefSeqiNP_061760.1. NM_018937.4.
UniGeneiHs.508987.
Hs.674730.
Hs.708778.

3D structure databases

ProteinModelPortaliQ9Y5E6.
SMRiQ9Y5E6. Positions 33-677.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

BioGridi121072. 1 interaction.

PTM databases

iPTMnetiQ9Y5E6.
PhosphoSiteiQ9Y5E6.

Polymorphism and mutation databases

BioMutaiPCDHB3.
DMDMi13431377.

Proteomic databases

EPDiQ9Y5E6.
PaxDbiQ9Y5E6.
PRIDEiQ9Y5E6.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsembliENST00000231130; ENSP00000231130; ENSG00000113205.
GeneIDi56132.
KEGGihsa:56132.
UCSCiuc003lio.5. human.

Organism-specific databases

CTDi56132.
GeneCardsiPCDHB3.
H-InvDBHIX0032374.
HGNCiHGNC:8688. PCDHB3.
HPAiHPA050296.
MIMi604967. gene.
606329. gene.
neXtProtiNX_Q9Y5E6.
PharmGKBiPA33037.
GenAtlasiSearch...

Phylogenomic databases

eggNOGiKOG3594. Eukaryota.
ENOG410XQHI. LUCA.
HOGENOMiHOG000220892.
HOVERGENiHBG054878.
InParanoidiQ9Y5E6.
KOiK16494.
OrthoDBiEOG7KSX80.
PhylomeDBiQ9Y5E6.
TreeFamiTF332299.

Miscellaneous databases

GeneWikiiPCDHB3.
GenomeRNAii56132.
PROiQ9Y5E6.
SOURCEiSearch...

Gene expression databases

BgeeiQ9Y5E6.
CleanExiHS_PCDHB3.
ExpressionAtlasiQ9Y5E6. baseline and differential.
GenevisibleiQ9Y5E6. 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.
IPR030735. PCDHB2/3.
[Graphical view]
PANTHERiPTHR24028:SF77. PTHR24028:SF77. 1 hit.
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. 6 hits.
PROSITEiPS00232. CADHERIN_1. 5 hits.
PS50268. CADHERIN_2. 6 hits.
[Graphical view]
ProtoNetiSearch...

Publicationsi

« Hide 'large scale' publications
  1. "A striking organization of a large family of human neural cadherin-like cell adhesion genes."
    Wu Q., Maniatis T.
    Cell 97:779-790(1999) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [MRNA].
  2. "The human and murine protocadherin-beta one-exon gene families show high evolutionary conservation, despite the difference in gene number."
    Vanhalst K., Kools P., Vanden Eynde E., van Roy F.
    FEBS Lett. 495:120-125(2001) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [MRNA].
  3. "Complete sequencing and characterization of 21,243 full-length human cDNAs."
    Ota T., Suzuki Y., Nishikawa T., Otsuki T., Sugiyama T., Irie R., Wakamatsu A., Hayashi K., Sato H., Nagai K., Kimura K., Makita H., Sekine M., Obayashi M., Nishi T., Shibahara T., Tanaka T., Ishii S.
    , Yamamoto J., Saito K., Kawai Y., Isono Y., Nakamura Y., Nagahari K., Murakami K., Yasuda T., Iwayanagi T., Wagatsuma M., Shiratori A., Sudo H., Hosoiri T., Kaku Y., Kodaira H., Kondo H., Sugawara M., Takahashi M., Kanda K., Yokoi T., Furuya T., Kikkawa E., Omura Y., Abe K., Kamihara K., Katsuta N., Sato K., Tanikawa M., Yamazaki M., Ninomiya K., Ishibashi T., Yamashita H., Murakawa K., Fujimori K., Tanai H., Kimata M., Watanabe M., Hiraoka S., Chiba Y., Ishida S., Ono Y., Takiguchi S., Watanabe S., Yosida M., Hotuta T., Kusano J., Kanehori K., Takahashi-Fujii A., Hara H., Tanase T.-O., Nomura Y., Togiya S., Komai F., Hara R., Takeuchi K., Arita M., Imose N., Musashino K., Yuuki H., Oshima A., Sasaki N., Aotsuka S., Yoshikawa Y., Matsunawa H., Ichihara T., Shiohata N., Sano S., Moriya S., Momiyama H., Satoh N., Takami S., Terashima Y., Suzuki O., Nakagawa S., Senoh A., Mizoguchi H., Goto Y., Shimizu F., Wakebe H., Hishigaki H., Watanabe T., Sugiyama A., Takemoto M., Kawakami B., Yamazaki M., Watanabe K., Kumagai A., Itakura S., Fukuzumi Y., Fujimori Y., Komiyama M., Tashiro H., Tanigami A., Fujiwara T., Ono T., Yamada K., Fujii Y., Ozaki K., Hirao M., Ohmori Y., Kawabata A., Hikiji T., Kobatake N., Inagaki H., Ikema Y., Okamoto S., Okitani R., Kawakami T., Noguchi S., Itoh T., Shigeta K., Senba T., Matsumura K., Nakajima Y., Mizuno T., Morinaga M., Sasaki M., Togashi T., Oyama M., Hata H., Watanabe M., Komatsu T., Mizushima-Sugano J., Satoh T., Shirai Y., Takahashi Y., Nakagawa K., Okumura K., Nagase T., Nomura N., Kikuchi H., Masuho Y., Yamashita R., Nakai K., Yada T., Nakamura Y., Ohara O., Isogai T., Sugano S.
    Nat. Genet. 36:40-45(2004) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA].
    Tissue: Brain.
  4. Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].

Entry informationi

Entry nameiPCDB3_HUMAN
AccessioniPrimary (citable) accession number: Q9Y5E6
Secondary accession number(s): B2R8P2
Entry historyi
Integrated into UniProtKB/Swiss-Prot: April 27, 2001
Last sequence update: November 1, 1999
Last modified: June 8, 2016
This is version 129 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.