PCDB3_HUMAN
ID PCDB3_HUMAN Reviewed; 796 AA.
AC Q9Y5E6; B2R8P2;
DT 27-APR-2001, integrated into UniProtKB/Swiss-Prot.
DT 31-JUL-2019, sequence version 2.
DT 03-AUG-2022, entry version 167.
DE RecName: Full=Protocadherin beta-3;
DE Short=PCDH-beta-3;
DE Flags: Precursor;
GN Name=PCDHB3;
OS Homo sapiens (Human).
OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia;
OC Eutheria; Euarchontoglires; Primates; Haplorrhini; Catarrhini; Hominidae;
OC Homo.
OX NCBI_TaxID=9606;
RN [1]
RP NUCLEOTIDE SEQUENCE [MRNA].
RX PubMed=10380929; DOI=10.1016/s0092-8674(00)80789-8;
RA Wu Q., Maniatis T.;
RT "A striking organization of a large family of human neural cadherin-like
RT cell adhesion genes.";
RL Cell 97:779-790(1999).
RN [2]
RP NUCLEOTIDE SEQUENCE [MRNA].
RX PubMed=11322959; DOI=10.1016/s0014-5793(01)02372-9;
RA Vanhalst K., Kools P., Vanden Eynde E., van Roy F.;
RT "The human and murine protocadherin-beta one-exon gene families show high
RT evolutionary conservation, despite the difference in gene number.";
RL FEBS Lett. 495:120-125(2001).
RN [3]
RP NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA].
RC TISSUE=Brain;
RX PubMed=14702039; DOI=10.1038/ng1285;
RA Ota T., Suzuki Y., Nishikawa T., Otsuki T., Sugiyama T., Irie R.,
RA Wakamatsu A., Hayashi K., Sato H., Nagai K., Kimura K., Makita H.,
RA Sekine M., Obayashi M., Nishi T., Shibahara T., Tanaka T., Ishii S.,
RA Yamamoto J., Saito K., Kawai Y., Isono Y., Nakamura Y., Nagahari K.,
RA Murakami K., Yasuda T., Iwayanagi T., Wagatsuma M., Shiratori A., Sudo H.,
RA Hosoiri T., Kaku Y., Kodaira H., Kondo H., Sugawara M., Takahashi M.,
RA Kanda K., Yokoi T., Furuya T., Kikkawa E., Omura Y., Abe K., Kamihara K.,
RA Katsuta N., Sato K., Tanikawa M., Yamazaki M., Ninomiya K., Ishibashi T.,
RA Yamashita H., Murakawa K., Fujimori K., Tanai H., Kimata M., Watanabe M.,
RA Hiraoka S., Chiba Y., Ishida S., Ono Y., Takiguchi S., Watanabe S.,
RA Yosida M., Hotuta T., Kusano J., Kanehori K., Takahashi-Fujii A., Hara H.,
RA Tanase T.-O., Nomura Y., Togiya S., Komai F., Hara R., Takeuchi K.,
RA Arita M., Imose N., Musashino K., Yuuki H., Oshima A., Sasaki N.,
RA Aotsuka S., Yoshikawa Y., Matsunawa H., Ichihara T., Shiohata N., Sano S.,
RA Moriya S., Momiyama H., Satoh N., Takami S., Terashima Y., Suzuki O.,
RA Nakagawa S., Senoh A., Mizoguchi H., Goto Y., Shimizu F., Wakebe H.,
RA Hishigaki H., Watanabe T., Sugiyama A., Takemoto M., Kawakami B.,
RA Yamazaki M., Watanabe K., Kumagai A., Itakura S., Fukuzumi Y., Fujimori Y.,
RA Komiyama M., Tashiro H., Tanigami A., Fujiwara T., Ono T., Yamada K.,
RA Fujii Y., Ozaki K., Hirao M., Ohmori Y., Kawabata A., Hikiji T.,
RA Kobatake N., Inagaki H., Ikema Y., Okamoto S., Okitani R., Kawakami T.,
RA Noguchi S., Itoh T., Shigeta K., Senba T., Matsumura K., Nakajima Y.,
RA Mizuno T., Morinaga M., Sasaki M., Togashi T., Oyama M., Hata H.,
RA Watanabe M., Komatsu T., Mizushima-Sugano J., Satoh T., Shirai Y.,
RA Takahashi Y., Nakagawa K., Okumura K., Nagase T., Nomura N., Kikuchi H.,
RA Masuho Y., Yamashita R., Nakai K., Yada T., Nakamura Y., Ohara O.,
RA Isogai T., Sugano S.;
RT "Complete sequencing and characterization of 21,243 full-length human
RT cDNAs.";
RL Nat. Genet. 36:40-45(2004).
RN [4]
RP NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
RX PubMed=15372022; DOI=10.1038/nature02919;
RA Schmutz J., Martin J., Terry A., Couronne O., Grimwood J., Lowry S.,
RA Gordon L.A., Scott D., Xie G., Huang W., Hellsten U., Tran-Gyamfi M.,
RA She X., Prabhakar S., Aerts A., Altherr M., Bajorek E., Black S.,
RA Branscomb E., Caoile C., Challacombe J.F., Chan Y.M., Denys M.,
RA Detter J.C., Escobar J., Flowers D., Fotopulos D., Glavina T., Gomez M.,
RA Gonzales E., Goodstein D., Grigoriev I., Groza M., Hammon N., Hawkins T.,
RA Haydu L., Israni S., Jett J., Kadner K., Kimball H., Kobayashi A.,
RA Lopez F., Lou Y., Martinez D., Medina C., Morgan J., Nandkeshwar R.,
RA Noonan J.P., Pitluck S., Pollard M., Predki P., Priest J., Ramirez L.,
RA Retterer J., Rodriguez A., Rogers S., Salamov A., Salazar A., Thayer N.,
RA Tice H., Tsai M., Ustaszewska A., Vo N., Wheeler J., Wu K., Yang J.,
RA Dickson M., Cheng J.-F., Eichler E.E., Olsen A., Pennacchio L.A.,
RA Rokhsar D.S., Richardson P., Lucas S.M., Myers R.M., Rubin E.M.;
RT "The DNA sequence and comparative analysis of human chromosome 5.";
RL Nature 431:268-274(2004).
RN [5]
RP NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
RA Mural R.J., Istrail S., Sutton G.G., Florea L., Halpern A.L., Mobarry C.M.,
RA Lippert R., Walenz B., Shatkay H., Dew I., Miller J.R., Flanigan M.J.,
RA Edwards N.J., Bolanos R., Fasulo D., Halldorsson B.V., Hannenhalli S.,
RA Turner R., Yooseph S., Lu F., Nusskern D.R., Shue B.C., Zheng X.H.,
RA Zhong F., Delcher A.L., Huson D.H., Kravitz S.A., Mouchard L., Reinert K.,
RA Remington K.A., Clark A.G., Waterman M.S., Eichler E.E., Adams M.D.,
RA Hunkapiller M.W., Myers E.W., Venter J.C.;
RL Submitted (SEP-2005) to the EMBL/GenBank/DDBJ databases.
CC -!- FUNCTION: Potential calcium-dependent cell-adhesion protein. May be
CC involved in the establishment and maintenance of specific neuronal
CC connections in the brain.
CC -!- INTERACTION:
CC Q9Y5E6; Q96N21: TEPSIN; NbExp=3; IntAct=EBI-24224850, EBI-11139477;
CC -!- SUBCELLULAR LOCATION: Cell membrane {ECO:0000250}; Single-pass type I
CC membrane protein {ECO:0000250}.
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DR EMBL; AF152496; AAD43757.1; -; mRNA.
DR EMBL; AF217755; AAK51622.1; -; mRNA.
DR EMBL; AK313451; BAG36239.1; -; mRNA.
DR EMBL; AC244517; -; NOT_ANNOTATED_CDS; Genomic_DNA.
DR EMBL; CH471062; EAW61981.1; -; Genomic_DNA.
DR CCDS; CCDS4245.1; -.
DR RefSeq; NP_061760.1; NM_018937.4.
DR AlphaFoldDB; Q9Y5E6; -.
DR SMR; Q9Y5E6; -.
DR BioGRID; 121072; 170.
DR IntAct; Q9Y5E6; 1.
DR STRING; 9606.ENSP00000231130; -.
DR GlyConnect; 1682; 1 N-Linked glycan (1 site).
DR GlyGen; Q9Y5E6; 4 sites, 1 N-linked glycan (1 site).
DR iPTMnet; Q9Y5E6; -.
DR PhosphoSitePlus; Q9Y5E6; -.
DR BioMuta; PCDHB3; -.
DR DMDM; 13431377; -.
DR jPOST; Q9Y5E6; -.
DR MassIVE; Q9Y5E6; -.
DR PaxDb; Q9Y5E6; -.
DR PeptideAtlas; Q9Y5E6; -.
DR PRIDE; Q9Y5E6; -.
DR ProteomicsDB; 86345; -.
DR Antibodypedia; 27186; 99 antibodies from 21 providers.
DR DNASU; 56132; -.
DR Ensembl; ENST00000231130.3; ENSP00000231130.2; ENSG00000113205.5.
DR GeneID; 56132; -.
DR KEGG; hsa:56132; -.
DR MANE-Select; ENST00000231130.3; ENSP00000231130.2; NM_018937.5; NP_061760.2.
DR UCSC; uc003lio.5; human.
DR CTD; 56132; -.
DR DisGeNET; 56132; -.
DR GeneCards; PCDHB3; -.
DR HGNC; HGNC:8688; PCDHB3.
DR HPA; ENSG00000113205; Low tissue specificity.
DR MIM; 604967; gene.
DR MIM; 606329; gene.
DR neXtProt; NX_Q9Y5E6; -.
DR OpenTargets; ENSG00000113205; -.
DR PharmGKB; PA33037; -.
DR VEuPathDB; HostDB:ENSG00000113205; -.
DR eggNOG; KOG3594; Eukaryota.
DR GeneTree; ENSGT00940000161193; -.
DR InParanoid; Q9Y5E6; -.
DR OMA; DNGRIMC; -.
DR OrthoDB; 300321at2759; -.
DR PhylomeDB; Q9Y5E6; -.
DR TreeFam; TF332299; -.
DR PathwayCommons; Q9Y5E6; -.
DR SignaLink; Q9Y5E6; -.
DR BioGRID-ORCS; 56132; 24 hits in 1038 CRISPR screens.
DR GeneWiki; PCDHB3; -.
DR GenomeRNAi; 56132; -.
DR Pharos; Q9Y5E6; Tdark.
DR PRO; PR:Q9Y5E6; -.
DR Proteomes; UP000005640; Chromosome 5.
DR RNAct; Q9Y5E6; protein.
DR Bgee; ENSG00000113205; Expressed in cortical plate and 90 other tissues.
DR ExpressionAtlas; Q9Y5E6; baseline and differential.
DR Genevisible; Q9Y5E6; HS.
DR GO; GO:0016021; C:integral component of membrane; NAS:UniProtKB.
DR GO; GO:0005887; C:integral component of plasma membrane; IBA:GO_Central.
DR GO; GO:0045202; C:synapse; IEA:GOC.
DR GO; GO:0005509; F:calcium ion binding; IEA:InterPro.
DR GO; GO:0016339; P:calcium-dependent cell-cell adhesion via plasma membrane cell adhesion molecules; NAS:UniProtKB.
DR GO; GO:0007155; P:cell adhesion; IBA:GO_Central.
DR GO; GO:0007268; P:chemical synaptic transmission; TAS:UniProtKB.
DR GO; GO:0007156; P:homophilic cell adhesion via plasma membrane adhesion molecules; IEA:InterPro.
DR GO; GO:0007399; P:nervous system development; TAS:ProtInc.
DR GO; GO:0007416; P:synapse assembly; TAS:UniProtKB.
DR InterPro; IPR002126; Cadherin-like_dom.
DR InterPro; IPR015919; Cadherin-like_sf.
DR InterPro; IPR032455; Cadherin_C.
DR InterPro; IPR020894; Cadherin_CS.
DR InterPro; IPR013164; Cadherin_N.
DR Pfam; PF00028; Cadherin; 5.
DR Pfam; PF08266; Cadherin_2; 1.
DR Pfam; PF16492; Cadherin_C_2; 1.
DR PRINTS; PR00205; CADHERIN.
DR SMART; SM00112; CA; 6.
DR SUPFAM; SSF49313; SSF49313; 6.
DR PROSITE; PS00232; CADHERIN_1; 5.
DR PROSITE; PS50268; CADHERIN_2; 6.
PE 1: Evidence at protein level;
KW Calcium; Cell adhesion; Cell membrane; Glycoprotein; Membrane;
KW Reference proteome; Repeat; Signal; Transmembrane; Transmembrane helix.
FT SIGNAL 1..26
FT /evidence="ECO:0000255"
FT CHAIN 27..796
FT /note="Protocadherin beta-3"
FT /id="PRO_0000003918"
FT TOPO_DOM 27..690
FT /note="Extracellular"
FT /evidence="ECO:0000255"
FT TRANSMEM 691..711
FT /note="Helical"
FT /evidence="ECO:0000255"
FT TOPO_DOM 712..796
FT /note="Cytoplasmic"
FT /evidence="ECO:0000255"
FT DOMAIN 35..133
FT /note="Cadherin 1"
FT /evidence="ECO:0000255|PROSITE-ProRule:PRU00043"
FT DOMAIN 138..242
FT /note="Cadherin 2"
FT /evidence="ECO:0000255|PROSITE-ProRule:PRU00043"
FT DOMAIN 247..347
FT /note="Cadherin 3"
FT /evidence="ECO:0000255|PROSITE-ProRule:PRU00043"
FT DOMAIN 352..451
FT /note="Cadherin 4"
FT /evidence="ECO:0000255|PROSITE-ProRule:PRU00043"
FT DOMAIN 456..561
FT /note="Cadherin 5"
FT /evidence="ECO:0000255|PROSITE-ProRule:PRU00043"
FT DOMAIN 568..671
FT /note="Cadherin 6"
FT /evidence="ECO:0000255|PROSITE-ProRule:PRU00043"
FT CARBOHYD 169
FT /note="N-linked (GlcNAc...) asparagine"
FT /evidence="ECO:0000255"
FT CARBOHYD 418
FT /note="N-linked (GlcNAc...) asparagine"
FT /evidence="ECO:0000255"
FT CARBOHYD 436
FT /note="N-linked (GlcNAc...) asparagine"
FT /evidence="ECO:0000255"
FT CARBOHYD 567
FT /note="N-linked (GlcNAc...) asparagine"
FT /evidence="ECO:0000255"
FT VARIANT 41
FT /note="K -> R (in dbSNP:rs31849)"
FT /id="VAR_024391"
FT VARIANT 207
FT /note="E -> K (in dbSNP:rs12515688)"
FT /id="VAR_033703"
FT VARIANT 414
FT /note="R -> S (in dbSNP:rs3733699)"
FT /id="VAR_020366"
FT CONFLICT 202
FT /note="P -> R (in Ref. 1; AAD43757, 2; AAK51622, 3;
FT BAG36239 and 5; EAW61981)"
FT /evidence="ECO:0000305"
SQ SEQUENCE 796 AA; 86714 MW; FEDE2DA284AE1B75 CRC64;
MEAGGERFLR QRQVLLLFVF LGGSLAGSES RRYSVAEEKE KGFLIANLAK DLGLRVEELA
ARGAQVVSKG NKQHFQLSHQ TGDLLLNEKL DREELCGPTE PCILHFQILL QNPLQFVTNE
LRIIDVNDHS PVFFENEMHL KILESTLPGT VIPLGNAEDL DVGRNSLQNY TITPNSHFHV
LTRSRRDGRK YPELVLDKAL DPEEQPELSL TLTALDGGSP PRSGTAQINI QVLDINDNAP
EFAQPLYEVA VLENTPVNSV IVTVSASDLD TGSFGTISYA FFHASEEIRK TFQLNPITGD
MQLVKYLNFE AINSYEVDIE AKDGGGLSGK STVIVQVVDV NDNPPELTLS SVNSPIPENS
GETVLAVFSV SDLDSGDNGR VMCSIENNLP FFLKPSVENF YTLVSEGALD RETRSEYNIT
ITITDLGTPR LKTKYNITVL VSDVNDNAPA FTQISYTLFV RENNSPALHI GSVSATDRDS
GTNAQVTYSL LPPQDPHLPL SSLVSINADN GHLFALRSLD YEALQAFEFR VGATDRGSPA
LSSEALVRVL VLDANDNSPF VLYPLQNGSA PCTELVPRAA EPGYLVTKVV AVDGDSGQNA
WLSYQLLKAT EPGLFGVWAH NGEVRTARLL SERDAAKHRL VVLVKDNGEP PRSATATLHV
LLVDGFSQPY LPLPEAAPAQ AQADLLTVYL VVALASVSSL FLFSVLLFVA VRLCRRSRAA
SVGRCSVPEG PFPGQMVDVS GTGTLSQSYQ YEVCLTGGSG TNEFKFLKPI IPNFVAQGAE
RVSEANPSFR KSFEFS
