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Q9Y5F2

- PCDBB_HUMAN

UniProt

Q9Y5F2 - PCDBB_HUMAN

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Protein

Protocadherin beta-11

Gene

PCDHB11

Organism
Homo sapiens (Human)
Status
Reviewed - 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

  1. calcium ion binding Source: InterPro

GO - Biological processi

  1. calcium-dependent cell-cell adhesion via plasma membrane cell adhesion molecules Source: UniProtKB
  2. cell adhesion Source: ProtInc
  3. homophilic cell adhesion via plasma membrane adhesion molecules Source: InterPro
  4. nervous system development Source: ProtInc
  5. synapse assembly Source: UniProtKB
  6. synaptic transmission Source: UniProtKB
Complete GO annotation...

Keywords - Biological processi

Cell adhesion

Keywords - Ligandi

Calcium

Names & Taxonomyi

Protein namesi
Recommended name:
Protocadherin beta-11
Short name:
PCDH-beta-11
Gene namesi
Name:PCDHB11
OrganismiHomo sapiens (Human)
Taxonomic identifieri9606 [NCBI]
Taxonomic lineageiEukaryotaMetazoaChordataCraniataVertebrataEuteleostomiMammaliaEutheriaEuarchontogliresPrimatesHaplorrhiniCatarrhiniHominidaeHomo
ProteomesiUP000005640: Chromosome 5

Organism-specific databases

HGNCiHGNC:8682. PCDHB11.

Subcellular locationi

Topology

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Topological domaini27 – 690664ExtracellularSequence AnalysisAdd
BLAST
Transmembranei691 – 71121HelicalSequence AnalysisAdd
BLAST
Topological domaini712 – 79786CytoplasmicSequence AnalysisAdd
BLAST

GO - Cellular componenti

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

Keywords - Cellular componenti

Cell membrane, Membrane

Pathology & Biotechi

Organism-specific databases

PharmGKBiPA33027.

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Signal peptidei1 – 2626Sequence AnalysisAdd
BLAST
Chaini27 – 797771Protocadherin beta-11PRO_0000003934Add
BLAST

Amino acid modifications

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Glycosylationi418 – 4181N-linked (GlcNAc...)Sequence Analysis
Glycosylationi436 – 4361N-linked (GlcNAc...)Sequence Analysis
Glycosylationi487 – 4871N-linked (GlcNAc...)Sequence Analysis
Glycosylationi567 – 5671N-linked (GlcNAc...)Sequence Analysis

Keywords - PTMi

Glycoprotein

Proteomic databases

PaxDbiQ9Y5F2.
PRIDEiQ9Y5F2.

PTM databases

PhosphoSiteiQ9Y5F2.

Expressioni

Gene expression databases

BgeeiQ9Y5F2.
CleanExiHS_PCDHB11.
ExpressionAtlasiQ9Y5F2. baseline and differential.
GenevestigatoriQ9Y5F2.

Organism-specific databases

HPAiHPA045042.

Interactioni

Protein-protein interaction databases

BioGridi121065. 1 interaction.

Structurei

3D structure databases

ProteinModelPortaliQ9Y5F2.
SMRiQ9Y5F2. Positions 30-677.
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

eggNOGiNOG251260.
GeneTreeiENSGT00760000118847.
HOVERGENiHBG054878.
InParanoidiQ9Y5F2.
KOiK16494.
OMAiKTEHNTT.
OrthoDBiEOG7KSX80.
PhylomeDBiQ9Y5F2.
TreeFamiTF332299.

Family and domain databases

Gene3Di2.60.40.60. 3 hits.
InterProiIPR002126. Cadherin.
IPR015919. Cadherin-like.
IPR020894. Cadherin_CS.
IPR013164. Cadherin_N.
[Graphical view]
PfamiPF00028. Cadherin. 5 hits.
PF08266. Cadherin_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]

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. Align

Isoform 1 (identifier: Q9Y5F2-1) [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
MENQGTRTQQ IRQVLLLFVL LGMSQAGSET WSFSVAEEMQ SGSFVGNLAK
60 70 80 90 100
DLGLKVRELS SRGARVVSND KKQRLQLDIN TGDLLLSETL DREELCGSIE
110 120 130 140 150
PCVLHLQVLM QNPTQFLQIE LQVRDINDHS PIFSEKQMLL EIPENSPVGA
160 170 180 190 200
VFLLESAKDL DVGINAVKSY TISPNSHFHI KMRVIPDNRK YPELVLDKAL
210 220 230 240 250
DYEELPELSF ILSALDGGSP PRSGTALVRV VVVDINDNSP EFEQAFYEVK
260 270 280 290 300
IRENSILGSL ILIVSAWDLD SGTNGEICYT FSHASEDIRK TFEINQKSGE
310 320 330 340 350
ITLRAPLDFE TIESYSIIIQ ATDGGGLFGK STVIIHVIDV NDNAPEITVS
360 370 380 390 400
SITSPIPENT PETVVMVFSI QDIDSGDNGR IVCSIPEDLP FVLKSSVENY
410 420 430 440 450
YTLETERPLD RESTAEYNIT ITVTDLGIPR LKTEHNTTVL VSDVNDNAPT
460 470 480 490 500
FTQTSYTLFV RENNSPALHI GSVSATDRDS GTNAQVNYSL LPPQDLHLPL
510 520 530 540 550
ASLVSINTDN GHLFALRSLD YEALQAFDFR 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
PRSATATLQV LLVDGFSQPY LPLPEAAPAQ AQADSLTVYL VVALASVSSL
710 720 730 740 750
FLFSVLLFVA VRLCRRSRAA SVGSCSVPKG PFPGHLVDVS GTGTLSQSYQ
760 770 780 790
YEVCLTGGSE TNEFKFLKPV IPNIQAKGLG KNSEENSTFR NSFGFNF
Length:797
Mass (Da):87,088
Last modified:November 1, 1999 - v1
Checksum:i8FBA0DBCC2858504
GO
Isoform 2 (identifier: Q9Y5F2-2) [UniParc]FASTAAdd to Basket

The sequence of this isoform differs from the canonical sequence as follows:
     1-365: Missing.

Note: No experimental confirmation available.

Show »
Length:432
Mass (Da):46,732
Checksum:i3EE3340AF7EE89BB
GO

Natural variant

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Natural varianti4 – 41Q → R.
Corresponds to variant rs3756323 [ dbSNP | Ensembl ].
VAR_021881
Natural varianti7 – 71R → H.
Corresponds to variant rs917535 [ dbSNP | Ensembl ].
VAR_048553
Natural varianti528 – 5281D → E.
Corresponds to variant rs799834 [ dbSNP | Ensembl ].
VAR_059188

Alternative sequence

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Alternative sequencei1 – 365365Missing in isoform 2. 1 PublicationVSP_055931Add
BLAST

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AF152490 mRNA. Translation: AAD43751.1.
AF217747 mRNA. Translation: AAK51615.1.
AK299719 mRNA. Translation: BAG61619.1.
AC005752 Genomic DNA. No translation available.
BC112132 mRNA. Translation: AAI12133.1.
BC113611 mRNA. Translation: AAI13612.1.
CCDSiCCDS4253.1. [Q9Y5F2-1]
RefSeqiNP_061754.1. NM_018931.2. [Q9Y5F2-1]
UniGeneiHs.283084.

Genome annotation databases

EnsembliENST00000354757; ENSP00000346802; ENSG00000197479. [Q9Y5F2-1]
ENST00000624887; ENSP00000485553; ENSG00000197479. [Q9Y5F2-2]
GeneIDi56125.
KEGGihsa:56125.
UCSCiuc003liy.3. human. [Q9Y5F2-1]

Polymorphism databases

DMDMi13431383.

Keywords - Coding sequence diversityi

Alternative splicing, Polymorphism

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AF152490 mRNA. Translation: AAD43751.1 .
AF217747 mRNA. Translation: AAK51615.1 .
AK299719 mRNA. Translation: BAG61619.1 .
AC005752 Genomic DNA. No translation available.
BC112132 mRNA. Translation: AAI12133.1 .
BC113611 mRNA. Translation: AAI13612.1 .
CCDSi CCDS4253.1. [Q9Y5F2-1 ]
RefSeqi NP_061754.1. NM_018931.2. [Q9Y5F2-1 ]
UniGenei Hs.283084.

3D structure databases

ProteinModelPortali Q9Y5F2.
SMRi Q9Y5F2. Positions 30-677.
ModBasei Search...
MobiDBi Search...

Protein-protein interaction databases

BioGridi 121065. 1 interaction.

PTM databases

PhosphoSitei Q9Y5F2.

Polymorphism databases

DMDMi 13431383.

Proteomic databases

PaxDbi Q9Y5F2.
PRIDEi Q9Y5F2.

Protocols and materials databases

DNASUi 56125.
Structural Biology Knowledgebase Search...

Genome annotation databases

Ensembli ENST00000354757 ; ENSP00000346802 ; ENSG00000197479 . [Q9Y5F2-1 ]
ENST00000624887 ; ENSP00000485553 ; ENSG00000197479 . [Q9Y5F2-2 ]
GeneIDi 56125.
KEGGi hsa:56125.
UCSCi uc003liy.3. human. [Q9Y5F2-1 ]

Organism-specific databases

CTDi 56125.
GeneCardsi GC05P140579.
HGNCi HGNC:8682. PCDHB11.
HPAi HPA045042.
MIMi 604967. gene.
606337. gene.
neXtProti NX_Q9Y5F2.
PharmGKBi PA33027.
GenAtlasi Search...

Phylogenomic databases

eggNOGi NOG251260.
GeneTreei ENSGT00760000118847.
HOVERGENi HBG054878.
InParanoidi Q9Y5F2.
KOi K16494.
OMAi KTEHNTT.
OrthoDBi EOG7KSX80.
PhylomeDBi Q9Y5F2.
TreeFami TF332299.

Miscellaneous databases

GeneWikii PCDHB11.
GenomeRNAii 56125.
NextBioi 35474650.
PROi Q9Y5F2.
SOURCEi Search...

Gene expression databases

Bgeei Q9Y5F2.
CleanExi HS_PCDHB11.
ExpressionAtlasi Q9Y5F2. baseline and differential.
Genevestigatori Q9Y5F2.

Family and domain databases

Gene3Di 2.60.40.60. 3 hits.
InterProi IPR002126. Cadherin.
IPR015919. Cadherin-like.
IPR020894. Cadherin_CS.
IPR013164. Cadherin_N.
[Graphical view ]
Pfami PF00028. Cadherin. 5 hits.
PF08266. Cadherin_2. 1 hit.
[Graphical view ]
PRINTSi PR00205. CADHERIN.
SMARTi SM00112. CA. 6 hits.
[Graphical view ]
SUPFAMi SSF49313. SSF49313. 6 hits.
PROSITEi PS00232. CADHERIN_1. 5 hits.
PS50268. CADHERIN_2. 6 hits.
[Graphical view ]
ProtoNeti Search...

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] (ISOFORM 1).
  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] (ISOFORM 1).
  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] (ISOFORM 2).
    Tissue: Brain.
  4. "The DNA sequence and comparative analysis of human chromosome 5."
    Schmutz J., Martin J., Terry A., Couronne O., Grimwood J., Lowry S., Gordon L.A., Scott D., Xie G., Huang W., Hellsten U., Tran-Gyamfi M., She X., Prabhakar S., Aerts A., Altherr M., Bajorek E., Black S.
    , Branscomb E., Caoile C., Challacombe J.F., Chan Y.M., Denys M., Detter J.C., Escobar J., Flowers D., Fotopulos D., Glavina T., Gomez M., Gonzales E., Goodstein D., Grigoriev I., Groza M., Hammon N., Hawkins T., Haydu L., Israni S., Jett J., Kadner K., Kimball H., Kobayashi A., Lopez F., Lou Y., Martinez D., Medina C., Morgan J., Nandkeshwar R., Noonan J.P., Pitluck S., Pollard M., Predki P., Priest J., Ramirez L., Retterer J., Rodriguez A., Rogers S., Salamov A., Salazar A., Thayer N., Tice H., Tsai M., Ustaszewska A., Vo N., Wheeler J., Wu K., Yang J., Dickson M., Cheng J.-F., Eichler E.E., Olsen A., Pennacchio L.A., Rokhsar D.S., Richardson P., Lucas S.M., Myers R.M., Rubin E.M.
    Nature 431:268-274(2004) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
  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] (ISOFORM 1).
    Tissue: Placenta.

Entry informationi

Entry nameiPCDBB_HUMAN
AccessioniPrimary (citable) accession number: Q9Y5F2
Secondary accession number(s): B4DSF7, Q2M223
Entry historyi
Integrated into UniProtKB/Swiss-Prot: April 27, 2001
Last sequence update: November 1, 1999
Last modified: November 26, 2014
This is version 119 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

External Data

Dasty 3