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Protein

Protocadherin-20

Gene

PCDH20

Organism
Homo sapiens (Human)
Status
Reviewed-Annotation score: Annotation score: 3 out of 5-Experimental evidence at transcript leveli

Functioni

Potential calcium-dependent cell-adhesion protein.

GO - Molecular functioni

  • calcium ion binding Source: InterPro
  • poly(A) RNA binding Source: UniProtKB

GO - Biological processi

Complete GO annotation...

Keywords - Biological processi

Cell adhesion

Keywords - Ligandi

Calcium

Names & Taxonomyi

Protein namesi
Recommended name:
Protocadherin-20
Alternative name(s):
Protocadherin-13
Gene namesi
Name:PCDH20
Synonyms:PCDH13
OrganismiHomo sapiens (Human)
Taxonomic identifieri9606 [NCBI]
Taxonomic lineageiEukaryotaMetazoaChordataCraniataVertebrataEuteleostomiMammaliaEutheriaEuarchontogliresPrimatesHaplorrhiniCatarrhiniHominidaeHomo
Proteomesi
  • UP000005640 Componenti: Chromosome 13

Organism-specific databases

HGNCiHGNC:14257. PCDH20.

Subcellular locationi

Topology

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Topological domaini61 – 890830ExtracellularSequence analysisAdd
BLAST
Transmembranei891 – 91121HelicalSequence analysisAdd
BLAST
Topological domaini912 – 95140CytoplasmicSequence analysisAdd
BLAST

GO - Cellular componenti

Complete GO annotation...

Keywords - Cellular componenti

Cell membrane, Membrane

Pathology & Biotechi

Organism-specific databases

PharmGKBiPA33004.

Polymorphism and mutation databases

BioMutaiPCDH20.
DMDMi544584765.

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Signal peptidei1 – 6060Sequence analysisAdd
BLAST
Chaini61 – 951891Protocadherin-20PRO_0000004005Add
BLAST

Amino acid modifications

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Glycosylationi135 – 1351N-linked (GlcNAc...)Sequence analysis
Glycosylationi326 – 3261N-linked (GlcNAc...)Sequence analysis
Glycosylationi332 – 3321N-linked (GlcNAc...)Sequence analysis
Glycosylationi680 – 6801N-linked (GlcNAc...)Sequence analysis
Glycosylationi748 – 7481N-linked (GlcNAc...)Sequence analysis
Glycosylationi803 – 8031N-linked (GlcNAc...)Sequence analysis
Glycosylationi844 – 8441N-linked (GlcNAc...)Sequence analysis
Glycosylationi849 – 8491N-linked (GlcNAc...)Sequence analysis

Keywords - PTMi

Glycoprotein

Proteomic databases

PaxDbiQ8N6Y1.
PRIDEiQ8N6Y1.

PTM databases

iPTMnetiQ8N6Y1.
PhosphoSiteiQ8N6Y1.

Expressioni

Gene expression databases

BgeeiQ8N6Y1.
CleanExiHS_PCDH20.
GenevisibleiQ8N6Y1. HS.

Interactioni

Protein-protein interaction databases

BioGridi122337. 51 interactions.

Structurei

3D structure databases

ProteinModelPortaliQ8N6Y1.
SMRiQ8N6Y1. Positions 197-852.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Domains and Repeats

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Domaini64 – 209146Cadherin 1PROSITE-ProRule annotationAdd
BLAST
Domaini210 – 320111Cadherin 2PROSITE-ProRule annotationAdd
BLAST
Domaini321 – 535215Cadherin 3PROSITE-ProRule annotationAdd
BLAST
Domaini536 – 639104Cadherin 4PROSITE-ProRule annotationAdd
BLAST
Domaini640 – 742103Cadherin 5PROSITE-ProRule annotationAdd
BLAST
Domaini746 – 863118Cadherin 6PROSITE-ProRule annotationAdd
BLAST

Sequence similaritiesi

Contains 6 cadherin domains.PROSITE-ProRule annotation

Keywords - Domaini

Repeat, Signal, Transmembrane, Transmembrane helix

Phylogenomic databases

eggNOGiENOG410IFFV. Eukaryota.
ENOG4110RHM. LUCA.
GeneTreeiENSGT00840000129706.
HOGENOMiHOG000234535.
HOVERGENiHBG053523.
InParanoidiQ8N6Y1.
KOiK16498.
OMAiVPRYIAN.
OrthoDBiEOG7WMCHN.
PhylomeDBiQ8N6Y1.
TreeFamiTF320624.

Family and domain databases

Gene3Di2.60.40.60. 6 hits.
InterProiIPR002126. Cadherin.
IPR015919. Cadherin-like.
IPR020894. Cadherin_CS.
[Graphical view]
PfamiPF00028. Cadherin. 5 hits.
[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.

Q8N6Y1-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MRGRGNARSS QALGVSWCPA TWHPRLDMGR LHRPRSSTSY RNLPHLFLFF
60 70 80 90 100
LFVGPFSCLG SYSRATELLY SLNEGLPAGV LIGSLAEDLR LLPRSAGRPD
110 120 130 140 150
PQSQLPERTG AEWNPPLSFS LASRGLSGQY VTLDNRSGEL HTSAQEIDRE
160 170 180 190 200
ALCVEGGGGT AWSGSVSISS SPSDSCLLLL DVLVLPQEYF RFVKVKIAIR
210 220 230 240 250
DINDNAPQFP VSQISVWVPE NAPVNTRLAI EHPAVDPDVG INGVQTYRLL
260 270 280 290 300
DYHGMFTLDV EENENGERTP YLIVMGALDR ETQDQYVSII IAEDGGSPPL
310 320 330 340 350
LGSATLTIGI SDINDNCPLF TDSQINVTVY GNATVGTPIA AVQAVDKDLG
360 370 380 390 400
TNAQITYSYS QKVPQASKDL FHLDENTGVI KLFSKIGGSV LESHKLTILA
410 420 430 440 450
NGPGCIPAVI TALVSIIKVI FRPPEIVPRY IANEIDGVVY LKELEPVNTP
460 470 480 490 500
IAFFTIRDPE GKYKVNCYLD GEGPFRLSPY KPYNNEYLLE TTKPMDYELQ
510 520 530 540 550
QFYEVAVVAW NSEGFHVKRV IKVQLLDDND NAPIFLQPLI ELTIEENNSP
560 570 580 590 600
NAFLTKLYAT DADSEERGQV SYFLGPDAPS YFSLDSVTGI LTVSTQLDRE
610 620 630 640 650
EKEKYRYTVR AVDCGKPPRE SVATVALTVL DKNDNSPRFI NKDFSFFVPE
660 670 680 690 700
NFPGYGEIGV ISVTDADAGR NGWVALSVVN QSDIFVIDTG KGMLRAKVSL
710 720 730 740 750
DREQQSSYTL WVEAVDGGEP ALSSTAKITI LLLDINDNPP LVLFPQSNMS
760 770 780 790 800
YLLVLPSTLP GSPVTEVYAV DKDTGMNAVI AYSIIGRRGP RPESFRIDPK
810 820 830 840 850
TGNITLEEAL LQTDYGLHRL LVKVSDHGYP EPLHSTVMVN LFVNDTVSNE
860 870 880 890 900
SYIESLLRKE PEINIEEKEP QISIEPTHRK VESVSCMPTL VALSVISLGS
910 920 930 940 950
ITLVTGMGIY ICLRKGEKHP REDENLEVQI PLKGKIDLHM RERKPMDISN

I
Length:951
Mass (Da):104,919
Last modified:September 18, 2013 - v2
Checksum:iE8506B94A686A591
GO

Sequence cautioni

The sequence AAH27907.1 differs from that shown. Reason: Erroneous initiation. Translation N-terminally extended.Curated

Experimental Info

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Sequence conflicti291 – 2911I → T in AAF89690 (Ref. 1) Curated

Natural variant

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Natural varianti523 – 5231V → M in a breast cancer sample; somatic mutation. 1 Publication
VAR_036111

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AF169693 mRNA. Translation: AAF89690.1.
AK289924 mRNA. Translation: BAF82613.1.
AL833830 mRNA. Translation: CAD38690.1.
AL592490 Genomic DNA. Translation: CAH73802.3.
CH471124 Genomic DNA. Translation: EAW52085.1.
BC027907 mRNA. Translation: AAH27907.1. Different initiation.
CCDSiCCDS9442.2.
RefSeqiNP_073754.2. NM_022843.3.
UniGeneiHs.391781.

Genome annotation databases

EnsembliENST00000409204; ENSP00000387250; ENSG00000280165.
GeneIDi64881.
KEGGihsa:64881.
UCSCiuc001vid.5. human.

Keywords - Coding sequence diversityi

Polymorphism

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AF169693 mRNA. Translation: AAF89690.1.
AK289924 mRNA. Translation: BAF82613.1.
AL833830 mRNA. Translation: CAD38690.1.
AL592490 Genomic DNA. Translation: CAH73802.3.
CH471124 Genomic DNA. Translation: EAW52085.1.
BC027907 mRNA. Translation: AAH27907.1. Different initiation.
CCDSiCCDS9442.2.
RefSeqiNP_073754.2. NM_022843.3.
UniGeneiHs.391781.

3D structure databases

ProteinModelPortaliQ8N6Y1.
SMRiQ8N6Y1. Positions 197-852.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

BioGridi122337. 51 interactions.

PTM databases

iPTMnetiQ8N6Y1.
PhosphoSiteiQ8N6Y1.

Polymorphism and mutation databases

BioMutaiPCDH20.
DMDMi544584765.

Proteomic databases

PaxDbiQ8N6Y1.
PRIDEiQ8N6Y1.

Protocols and materials databases

DNASUi64881.
Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsembliENST00000409204; ENSP00000387250; ENSG00000280165.
GeneIDi64881.
KEGGihsa:64881.
UCSCiuc001vid.5. human.

Organism-specific databases

CTDi64881.
GeneCardsiPCDH20.
HGNCiHGNC:14257. PCDH20.
MIMi614449. gene.
neXtProtiNX_Q8N6Y1.
PharmGKBiPA33004.
GenAtlasiSearch...

Phylogenomic databases

eggNOGiENOG410IFFV. Eukaryota.
ENOG4110RHM. LUCA.
GeneTreeiENSGT00840000129706.
HOGENOMiHOG000234535.
HOVERGENiHBG053523.
InParanoidiQ8N6Y1.
KOiK16498.
OMAiVPRYIAN.
OrthoDBiEOG7WMCHN.
PhylomeDBiQ8N6Y1.
TreeFamiTF320624.

Miscellaneous databases

GeneWikiiPCDH20.
GenomeRNAii64881.
PROiQ8N6Y1.
SOURCEiSearch...

Gene expression databases

BgeeiQ8N6Y1.
CleanExiHS_PCDH20.
GenevisibleiQ8N6Y1. HS.

Family and domain databases

Gene3Di2.60.40.60. 6 hits.
InterProiIPR002126. Cadherin.
IPR015919. Cadherin-like.
IPR020894. Cadherin_CS.
[Graphical view]
PfamiPF00028. Cadherin. 5 hits.
[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. "Identification and characterization of a novel human protocadherin localized on chromosome 13q21, a region containing also protocadherin-8 and -9."
    Kools P.F.J., van Roy F.
    Submitted (JUL-1999) to the EMBL/GenBank/DDBJ databases
    Cited for: NUCLEOTIDE SEQUENCE [MRNA].
  2. Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA].
    Tissue: Testis.
  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: Hippocampus.
  4. "The DNA sequence and analysis of human chromosome 13."
    Dunham A., Matthews L.H., Burton J., Ashurst J.L., Howe K.L., Ashcroft K.J., Beare D.M., Burford D.C., Hunt S.E., Griffiths-Jones S., Jones M.C., Keenan S.J., Oliver K., Scott C.E., Ainscough R., Almeida J.P., Ambrose K.D., Andrews D.T.
    , Ashwell R.I.S., Babbage A.K., Bagguley C.L., Bailey J., Bannerjee R., Barlow K.F., Bates K., Beasley H., Bird C.P., Bray-Allen S., Brown A.J., Brown J.Y., Burrill W., Carder C., Carter N.P., Chapman J.C., Clamp M.E., Clark S.Y., Clarke G., Clee C.M., Clegg S.C., Cobley V., Collins J.E., Corby N., Coville G.J., Deloukas P., Dhami P., Dunham I., Dunn M., Earthrowl M.E., Ellington A.G., Faulkner L., Frankish A.G., Frankland J., French L., Garner P., Garnett J., Gilbert J.G.R., Gilson C.J., Ghori J., Grafham D.V., Gribble S.M., Griffiths C., Hall R.E., Hammond S., Harley J.L., Hart E.A., Heath P.D., Howden P.J., Huckle E.J., Hunt P.J., Hunt A.R., Johnson C., Johnson D., Kay M., Kimberley A.M., King A., Laird G.K., Langford C.J., Lawlor S., Leongamornlert D.A., Lloyd D.M., Lloyd C., Loveland J.E., Lovell J., Martin S., Mashreghi-Mohammadi M., McLaren S.J., McMurray A., Milne S., Moore M.J.F., Nickerson T., Palmer S.A., Pearce A.V., Peck A.I., Pelan S., Phillimore B., Porter K.M., Rice C.M., Searle S., Sehra H.K., Shownkeen R., Skuce C.D., Smith M., Steward C.A., Sycamore N., Tester J., Thomas D.W., Tracey A., Tromans A., Tubby B., Wall M., Wallis J.M., West A.P., Whitehead S.L., Willey D.L., Wilming L., Wray P.W., Wright M.W., Young L., Coulson A., Durbin R.M., Hubbard T., Sulston J.E., Beck S., Bentley D.R., Rogers J., Ross M.T.
    Nature 428:522-528(2004) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
  5. Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
  6. "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] OF 5-951.
    Tissue: Lung.
  7. Cited for: VARIANT [LARGE SCALE ANALYSIS] MET-523.

Entry informationi

Entry nameiPCD20_HUMAN
AccessioniPrimary (citable) accession number: Q8N6Y1
Secondary accession number(s): A8K1K9
, B1AQU2, Q8NDN4, Q9NRT9
Entry historyi
Integrated into UniProtKB/Swiss-Prot: August 16, 2004
Last sequence update: September 18, 2013
Last modified: June 8, 2016
This is version 122 of the entry and version 2 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 13
    Human chromosome 13: 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.