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Protein

Protocadherin-17

Gene

PCDH17

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.

GO - Molecular functioni

  1. calcium ion binding Source: InterPro

GO - Biological processi

  1. homophilic cell adhesion via plasma membrane adhesion molecules Source: InterPro
Complete GO annotation...

Keywords - Biological processi

Cell adhesion

Keywords - Ligandi

Calcium

Names & Taxonomyi

Protein namesi
Recommended name:
Protocadherin-17
Alternative name(s):
Protocadherin-68
Gene namesi
Name:PCDH17
Synonyms:PCDH68, PCH68
OrganismiHomo sapiens (Human)
Taxonomic identifieri9606 [NCBI]
Taxonomic lineageiEukaryotaMetazoaChordataCraniataVertebrataEuteleostomiMammaliaEutheriaEuarchontogliresPrimatesHaplorrhiniCatarrhiniHominidaeHomo
ProteomesiUP000005640 Componenti: Chromosome 13

Organism-specific databases

HGNCiHGNC:14267. PCDH17.

Subcellular locationi

Topology

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Topological domaini18 – 707690ExtracellularSequence AnalysisAdd
BLAST
Transmembranei708 – 72821HelicalSequence AnalysisAdd
BLAST
Topological domaini729 – 1159431CytoplasmicSequence AnalysisAdd
BLAST

GO - Cellular componenti

  1. integral component of membrane Source: UniProtKB-KW
  2. plasma membrane Source: UniProtKB-SubCell
Complete GO annotation...

Keywords - Cellular componenti

Cell membrane, Membrane

Pathology & Biotechi

Organism-specific databases

PharmGKBiPA33001.

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Signal peptidei1 – 1717Sequence AnalysisAdd
BLAST
Chaini18 – 11591142Protocadherin-17PRO_0000004001Add
BLAST

Amino acid modifications

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Glycosylationi22 – 221N-linked (GlcNAc...)Sequence Analysis
Glycosylationi266 – 2661N-linked (GlcNAc...)Sequence Analysis
Glycosylationi439 – 4391N-linked (GlcNAc...)Sequence Analysis
Glycosylationi453 – 4531N-linked (GlcNAc...)Sequence Analysis
Glycosylationi504 – 5041N-linked (GlcNAc...)Sequence Analysis
Glycosylationi566 – 5661N-linked (GlcNAc...)Sequence Analysis
Glycosylationi590 – 5901N-linked (GlcNAc...)Sequence Analysis

Keywords - PTMi

Glycoprotein

Proteomic databases

MaxQBiO14917.
PaxDbiO14917.
PRIDEiO14917.

PTM databases

PhosphoSiteiO14917.

Expressioni

Developmental stagei

During midgestation, enriched in the frontal and anterior temporal cortices. Expressed at high levels in the exterior margins of the thalamus, ventromedial striatal neuroepithelium and anterior cingulate.1 Publication

Gene expression databases

BgeeiO14917.
CleanExiHS_PCDH17.
GenevestigatoriO14917.

Organism-specific databases

HPAiHPA026817.

Interactioni

Protein-protein interaction databases

BioGridi118101. 3 interactions.
IntActiO14917. 5 interactions.
MINTiMINT-2872192.
STRINGi9606.ENSP00000367151.

Structurei

3D structure databases

ProteinModelPortaliO14917.
SMRiO14917. Positions 21-682.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Domains and Repeats

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Domaini18 – 132115Cadherin 1PROSITE-ProRule annotationAdd
BLAST
Domaini133 – 243111Cadherin 2PROSITE-ProRule annotationAdd
BLAST
Domaini244 – 351108Cadherin 3PROSITE-ProRule annotationAdd
BLAST
Domaini353 – 472120Cadherin 4PROSITE-ProRule annotationAdd
BLAST
Domaini473 – 583111Cadherin 5PROSITE-ProRule annotationAdd
BLAST
Domaini589 – 695107Cadherin 6PROSITE-ProRule annotationAdd
BLAST

Motif

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Motifi186 – 1883Cell attachment siteSequence Analysis

Compositional bias

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Compositional biasi382 – 40827Gly-richAdd
BLAST

Sequence similaritiesi

Contains 6 cadherin domains.PROSITE-ProRule annotation

Keywords - Domaini

Repeat, Signal, Transmembrane, Transmembrane helix

Phylogenomic databases

eggNOGiNOG316352.
GeneTreeiENSGT00780000121859.
HOGENOMiHOG000220893.
HOVERGENiHBG054878.
InParanoidiO14917.
KOiK16499.
OMAiEQEPEEC.
OrthoDBiEOG7J445X.
PhylomeDBiO14917.
TreeFamiTF352008.

Family and domain databases

Gene3Di2.60.40.60. 6 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. AlignAdd to basket

Isoform 1 (identifier: O14917-1) [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
MYLSICCCFL LWAPALTLKN LNYSVPEEQG AGTVIGNIGR DARLQPGLPP
60 70 80 90 100
AERGGGGRSK SGSYRVLENS APHLLDVDAD SGLLYTKQRI DRESLCRHNA
110 120 130 140 150
KCQLSLEVFA NDKEICMIKV EIQDINDNAP SFSSDQIEMD ISENAAPGTR
160 170 180 190 200
FPLTSAHDPD AGENGLRTYL LTRDDHGLFG LDVKSRGDGT KFPELVIQKA
210 220 230 240 250
LDREQQNHHT LVLTALDGGE PPRSATVQIN VKVIDSNDNS PVFEAPSYLV
260 270 280 290 300
ELPENAPLGT VVIDLNATDA DEGPNGEVLY SFSSYVPDRV RELFSIDPKT
310 320 330 340 350
GLIRVKGNLD YEENGMLEID VQARDLGPNP IPAHCKVTVK LIDRNDNAPS
360 370 380 390 400
IGFVSVRQGA LSEAAPPGTV IALVRVTDRD SGKNGQLQCR VLGGGGTGGG
410 420 430 440 450
GGLGGPGGSV PFKLEENYDN FYTVVTDRPL DRETQDEYNV TIVARDGGSP
460 470 480 490 500
PLNSTKSFAI KILDENDNPP RFTKGLYVLQ VHENNIPGEY LGSVLAQDPD
510 520 530 540 550
LGQNGTVSYS ILPSHIGDVS IYTYVSVNPT NGAIYALRSF NFEQTKAFEF
560 570 580 590 600
KVLAKDSGAP AHLESNATVR VTVLDVNDNA PVIVLPTLQN DTAELQVPRN
610 620 630 640 650
AGLGYLVSTV RALDSDFGES GRLTYEIVDG NDDHLFEIDP SSGEIRTLHP
660 670 680 690 700
FWEDVTPVVE LVVKVTDHGK PTLSAVAKLI IRSVSGSLPE GVPRVNGEQH
710 720 730 740 750
HWDMSLPLIV TLSTISIILL AAMITIAVKC KRENKEIRTY NCRIAEYSHP
760 770 780 790 800
QLGGGKGKKK KINKNDIMLV QSEVEERNAM NVMNVVSSPS LATSPMYFDY
810 820 830 840 850
QTRLPLSSPR SEVMYLKPAS NNLTVPQGHA GCHTSFTGQG TNASETPATR
860 870 880 890 900
MSIIQTDNFP AEPNYMGSRQ QFVQSSSTFK DPERASLRDS GHGDSDQADS
910 920 930 940 950
DQDTNKGSCC DMSVREALKM KTTSTKSQPL EQEPEECVNC TDECRVLGHS
960 970 980 990 1000
DRCWMPQFPA ANQAENADYR TNLFVPTVEA NVETETYETV NPTGKKTFCT
1010 1020 1030 1040 1050
FGKDKREHTI LIANVKPYLK AKRALSPLLQ EVPSASSSPT KACIEPCTST
1060 1070 1080 1090 1100
KGSLDGCEAK PGALAEASSQ YLPTDSQYLS PSKQPRDPPF MASDQMARVF
1110 1120 1130 1140 1150
ADVHSRASRD SSEMGAVLEQ LDHPNRDLGR ESVDAEEVVR EIDKLLQDCR

GNDPVAVRK
Length:1,159
Mass (Da):126,229
Last modified:November 27, 2006 - v2
Checksum:iF687502B563B4013
GO
Isoform 2 (identifier: O14917-2) [UniParc]FASTAAdd to basket

The sequence of this isoform differs from the canonical sequence as follows:
     876-889: SSTFKDPERASLRD → ISVAPRLRTQKEPA
     890-1159: Missing.

Note: May be produced at very low levels due to a premature stop codon in the mRNA, leading to nonsense-mediated mRNA decay.

Show »
Length:889
Mass (Da):96,570
Checksum:iE53D044E217A02CE
GO

Experimental Info

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Sequence conflicti139 – 1391M → L in AAB84144 (Ref. 1) Curated
Sequence conflicti256 – 2561A → T in AAB84144 (Ref. 1) Curated
Sequence conflicti330 – 3301P → L in AAB84144 (Ref. 1) Curated
Sequence conflicti430 – 4301L → M in AAB84144 (Ref. 1) Curated
Sequence conflicti489 – 4891E → D in AAB84144 (Ref. 1) Curated

Alternative sequence

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Alternative sequencei876 – 88914SSTFK…ASLRD → ISVAPRLRTQKEPA in isoform 2. 1 PublicationVSP_021581Add
BLAST
Alternative sequencei890 – 1159270Missing in isoform 2. 1 PublicationVSP_021582Add
BLAST

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AF029343 mRNA. Translation: AAB84144.1.
AK289980 mRNA. Translation: BAF82669.1.
AL445216, AL445288 Genomic DNA. Translation: CAH71250.1.
AL445288, AL445216 Genomic DNA. Translation: CAI17092.1.
CH471124 Genomic DNA. Translation: EAW52060.1.
BC028165 mRNA. Translation: AAH28165.1.
CCDSiCCDS31986.1. [O14917-1]
PIRiT09055.
RefSeqiNP_001035519.1. NM_001040429.2. [O14917-1]
XP_005266414.1. XM_005266357.1. [O14917-1]
UniGeneiHs.106511.

Genome annotation databases

EnsembliENST00000377918; ENSP00000367151; ENSG00000118946. [O14917-1]
ENST00000484979; ENSP00000432899; ENSG00000118946. [O14917-2]
GeneIDi27253.
KEGGihsa:27253.
UCSCiuc001vhq.1. human. [O14917-1]

Keywords - Coding sequence diversityi

Alternative splicing

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AF029343 mRNA. Translation: AAB84144.1.
AK289980 mRNA. Translation: BAF82669.1.
AL445216, AL445288 Genomic DNA. Translation: CAH71250.1.
AL445288, AL445216 Genomic DNA. Translation: CAI17092.1.
CH471124 Genomic DNA. Translation: EAW52060.1.
BC028165 mRNA. Translation: AAH28165.1.
CCDSiCCDS31986.1. [O14917-1]
PIRiT09055.
RefSeqiNP_001035519.1. NM_001040429.2. [O14917-1]
XP_005266414.1. XM_005266357.1. [O14917-1]
UniGeneiHs.106511.

3D structure databases

ProteinModelPortaliO14917.
SMRiO14917. Positions 21-682.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

BioGridi118101. 3 interactions.
IntActiO14917. 5 interactions.
MINTiMINT-2872192.
STRINGi9606.ENSP00000367151.

PTM databases

PhosphoSiteiO14917.

Proteomic databases

MaxQBiO14917.
PaxDbiO14917.
PRIDEiO14917.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsembliENST00000377918; ENSP00000367151; ENSG00000118946. [O14917-1]
ENST00000484979; ENSP00000432899; ENSG00000118946. [O14917-2]
GeneIDi27253.
KEGGihsa:27253.
UCSCiuc001vhq.1. human. [O14917-1]

Organism-specific databases

CTDi27253.
GeneCardsiGC13P058205.
HGNCiHGNC:14267. PCDH17.
HPAiHPA026817.
MIMi611760. gene.
neXtProtiNX_O14917.
PharmGKBiPA33001.
GenAtlasiSearch...

Phylogenomic databases

eggNOGiNOG316352.
GeneTreeiENSGT00780000121859.
HOGENOMiHOG000220893.
HOVERGENiHBG054878.
InParanoidiO14917.
KOiK16499.
OMAiEQEPEEC.
OrthoDBiEOG7J445X.
PhylomeDBiO14917.
TreeFamiTF352008.

Miscellaneous databases

ChiTaRSiPCDH17. human.
GeneWikiiPCDH17.
GenomeRNAii27253.
NextBioi50190.
PROiO14917.
SOURCEiSearch...

Gene expression databases

BgeeiO14917.
CleanExiHS_PCDH17.
GenevestigatoriO14917.

Family and domain databases

Gene3Di2.60.40.60. 6 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]
ProtoNetiSearch...

Publicationsi

« Hide 'large scale' publications
  1. "Human protocadherin 68."
    Jin P., Xu H., Israel D.
    Submitted (SEP-1997) to the EMBL/GenBank/DDBJ databases
    Cited for: NUCLEOTIDE SEQUENCE [MRNA] (ISOFORM 2).
  2. "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(2003) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA] (ISOFORM 1).
    Tissue: Hippocampus.
  3. "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(2003) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
  4. 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(2003) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA] (ISOFORM 1).
    Tissue: Brain.
  6. Cited for: DEVELOPMENTAL STAGE.

Entry informationi

Entry nameiPCD17_HUMAN
AccessioniPrimary (citable) accession number: O14917
Secondary accession number(s): A8K1R5, Q5VVW9, Q5VVX0
Entry historyi
Integrated into UniProtKB/Swiss-Prot: January 15, 2004
Last sequence update: November 27, 2006
Last modified: February 3, 2015
This is version 123 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. MIM cross-references
    Online Mendelian Inheritance in Man (MIM) cross-references in UniProtKB/Swiss-Prot
  3. SIMILARITY comments
    Index of protein domains and families

External Data

Dasty 3

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 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.