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Q9Y5F0 (PCDBD_HUMAN) Reviewed, UniProtKB/Swiss-Prot

Last modified April 16, 2014. Version 121. Feed History...

Clusters with 100%, 90%, 50% identity | Documents (5) | Third-party data text xml rdf/xml gff fasta
to top of pageNames·Attributes·General annotation·Ontologies·Sequence annotation·Sequences·References·Cross-refs·Entry info·DocumentsCustomize order

Names and origin

Protein namesRecommended name:
Protocadherin beta-13

Short name=PCDH-beta-13
Gene names
Name:PCDHB13
ORF Names:UNQ332/PRO531
OrganismHomo sapiens (Human) [Reference proteome]
Taxonomic identifier9606 [NCBI]
Taxonomic lineageEukaryotaMetazoaChordataCraniataVertebrataEuteleostomiMammaliaEutheriaEuarchontogliresPrimatesHaplorrhiniCatarrhiniHominidaeHomo

Protein attributes

Sequence length798 AA.
Sequence statusComplete.
Sequence processingThe displayed sequence is further processed into a mature form.
Protein existenceEvidence at transcript level

General annotation (Comments)

Function

Potential calcium-dependent cell-adhesion protein. May be involved in the establishment and maintenance of specific neuronal connections in the brain.

Subcellular location

Cell membrane; Single-pass type I membrane protein By similarity.

Sequence similarities

Contains 6 cadherin domains.

Sequence annotation (Features)

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifier

Molecule processing

Signal peptide1 – 2828 Potential
Chain29 – 798770Protocadherin beta-13
PRO_0000003938

Regions

Topological domain29 – 690662Extracellular Potential
Transmembrane691 – 71121Helical; Potential
Topological domain712 – 79887Cytoplasmic Potential
Domain36 – 13499Cadherin 1
Domain139 – 243105Cadherin 2
Domain248 – 348101Cadherin 3
Domain353 – 45199Cadherin 4
Domain456 – 561106Cadherin 5
Domain568 – 671104Cadherin 6

Amino acid modifications

Glycosylation4181N-linked (GlcNAc...) Potential
Glycosylation4361N-linked (GlcNAc...) Potential
Glycosylation5671N-linked (GlcNAc...) Potential

Natural variations

Natural variant4711R → G.
Corresponds to variant rs2910329 [ dbSNP | Ensembl ].
VAR_059189

Experimental info

Sequence conflict7051V → E in BAF85510. Ref.4

Sequences

Sequence LengthMass (Da)Tools
Q9Y5F0 [UniParc].

Last modified November 1, 1999. Version 1.
Checksum: 2A478554498B41A3

FASTA79887,552
        10         20         30         40         50         60 
MEASGKLICR QRQVLFSFLL LGLSLAGAAE PRSYSVVEET EGSSFVTNLA KDLGLEQREF 

        70         80         90        100        110        120 
SRRGVRVVSR GNKLHLQLNQ ETADLLLNEK LDREDLCGHT EPCVLRFQVL LESPFEFFQA 

       130        140        150        160        170        180 
ELQVIDINDH SPVFLDKQML VKVSESSPPG TTFPLKNAED LDVGQNNIEN YIISPNSYFR 

       190        200        210        220        230        240 
VLTRKRSDGR KYPELVLDKA LDREEEAELR LTLTALDGGS PPRSGTAQVY IEVLDVNDNA 

       250        260        270        280        290        300 
PEFEQPFYRV QISEDSPVGF LVVKVSATDV DTGVNGEISY SLFQASEEIG KTFKINPLTG 

       310        320        330        340        350        360 
EIELKKQLDF EKLQSYEVNI EARDAGTFSG KCTVLIQVID VNDHAPEVTM SAFTSPIPEN 

       370        380        390        400        410        420 
APETVVALFS VSDLDSGENG KISCSIQEDL PFLLKSAENF YTLLTERPLD RESRAEYNIT 

       430        440        450        460        470        480 
ITVTDLGTPM LITQLNMTVL IADVNDNAPA FTQTSYTLFV RENNSPALHI RSVSATDRDS 

       490        500        510        520        530        540 
GTNAQVTYSL LPPQDPHLPL TSLVSINADN GHLFALRSLD YEALQGFQFR VGASDHGSPA 

       550        560        570        580        590        600 
LSSEALVRVV VLDANDNSPF VLYPLQNGSA PCTELVPRAA EPGYLVTKVV AVDGDSGQNA 

       610        620        630        640        650        660 
WLSYQLLKAT ELGLFGVWAH NGEVRTARLL SERDAAKHRL VVLVKDNGEP PRSATATLHV 

       670        680        690        700        710        720 
LLVDGFSQPY LPLPEAAPTQ AQADLLTVYL VVALASVSSL FLFSVLLFVA VRLCRRSRAA 

       730        740        750        760        770        780 
SVGRCLVPEG PLPGHLVDMS GTRTLSQSYQ YEVCLAGGSG TNEFKFLKPI IPNFPPQCPG 

       790 
KEIQGNSTFP NNFGFNIQ 

« Hide

References

« Hide 'large scale' references
[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]"The secreted protein discovery initiative (SPDI), a large-scale effort to identify novel human secreted and transmembrane proteins: a bioinformatics assessment."
Clark H.F., Gurney A.L., Abaya E., Baker K., Baldwin D.T., Brush J., Chen J., Chow B., Chui C., Crowley C., Currell B., Deuel B., Dowd P., Eaton D., Foster J.S., Grimaldi C., Gu Q., Hass P.E. expand/collapse author list , Heldens S., Huang A., Kim H.S., Klimowski L., Jin Y., Johnson S., Lee J., Lewis L., Liao D., Mark M.R., Robbie E., Sanchez C., Schoenfeld J., Seshagiri S., Simmons L., Singh J., Smith V., Stinson J., Vagts A., Vandlen R.L., Watanabe C., Wieand D., Woods K., Xie M.-H., Yansura D.G., Yi S., Yu G., Yuan J., Zhang M., Zhang Z., Goddard A.D., Wood W.I., Godowski P.J., Gray A.M.
Genome Res. 13:2265-2270(2003) [PubMed] [Europe PMC] [Abstract]
Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA].
[4]"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. expand/collapse author list , 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: Trachea.
[5]"The status, quality, and expansion of the NIH full-length cDNA project: the Mammalian Gene Collection (MGC)."
The MGC Project Team
Genome Res. 14:2121-2127(2004) [PubMed] [Europe PMC] [Abstract]
Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA].
Tissue: Lung and Prostate.

Cross-references

Sequence databases

EMBL
GenBank
DDBJ
AF152492 mRNA. Translation: AAD43753.1.
AF217745 mRNA. Translation: AAK51613.1.
AY358427 mRNA. Translation: AAQ88793.1.
AK292821 mRNA. Translation: BAF85510.1.
BC033068 mRNA. Translation: AAH33068.1.
BC051348 mRNA. Translation: AAH51348.1.
BC071934 mRNA. Translation: AAH71934.1.
RefSeqNP_061756.1. NM_018933.3.
UniGeneHs.283803.

3D structure databases

ProteinModelPortalQ9Y5F0.
SMRQ9Y5F0. Positions 33-679.
ModBaseSearch...
MobiDBSearch...

PTM databases

PhosphoSiteQ9Y5F0.

Polymorphism databases

DMDM13431381.

Proteomic databases

PaxDbQ9Y5F0.
PRIDEQ9Y5F0.

Protocols and materials databases

StructuralBiologyKnowledgebaseSearch...

Genome annotation databases

EnsemblENST00000341948; ENSP00000345491; ENSG00000187372.
ENST00000609173; ENSP00000476836; ENSG00000273357.
GeneID56123.
KEGGhsa:56123.
UCSCuc003lja.1. human.

Organism-specific databases

CTD56123.
GeneCardsGC05P141285.
HGNCHGNC:8684. PCDHB13.
MIM604967. gene.
606339. gene.
neXtProtNX_Q9Y5F0.
PharmGKBPA33029.
GenAtlasSearch...

Phylogenomic databases

eggNOGNOG323456.
HOGENOMHOG000220892.
HOVERGENHBG054878.
InParanoidQ9Y5F0.
KOK16494.
OMANMTVLIA.
OrthoDBEOG7KSX80.
PhylomeDBQ9Y5F0.
TreeFamTF332299.

Gene expression databases

BgeeQ9Y5F0.
CleanExHS_PCDHB13.
GenevestigatorQ9Y5F0.

Family and domain databases

Gene3D2.60.40.60. 5 hits.
InterProIPR002126. Cadherin.
IPR015919. Cadherin-like.
IPR020894. Cadherin_CS.
IPR013164. Cadherin_N.
[Graphical view]
PfamPF00028. Cadherin. 5 hits.
PF08266. Cadherin_2. 1 hit.
[Graphical view]
PRINTSPR00205. CADHERIN.
SMARTSM00112. CA. 6 hits.
[Graphical view]
SUPFAMSSF49313. SSF49313. 5 hits.
PROSITEPS00232. CADHERIN_1. 5 hits.
PS50268. CADHERIN_2. 5 hits.
[Graphical view]
ProtoNetSearch...

Other

GeneWikiPCDHB13.
GenomeRNAi56123.
NextBio35464687.
PROQ9Y5F0.
SOURCESearch...

Entry information

Entry namePCDBD_HUMAN
AccessionPrimary (citable) accession number: Q9Y5F0
Secondary accession number(s): A8K9V6
Entry history
Integrated into UniProtKB/Swiss-Prot: April 27, 2001
Last sequence update: November 1, 1999
Last modified: April 16, 2014
This is version 121 of the entry and version 1 of the sequence. [Complete history]
Entry statusReviewed (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.

Relevant documents

SIMILARITY comments

Index of protein domains and families

MIM cross-references

Online Mendelian Inheritance in Man (MIM) cross-references in UniProtKB/Swiss-Prot

Human polymorphisms and disease mutations

Index of human polymorphisms and disease mutations

Human entries with polymorphisms or disease mutations

List of human entries with polymorphisms or disease mutations

Human chromosome 5

Human chromosome 5: entries, gene names and cross-references to MIM