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Q08174 (PCDH1_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·Alt products·Sequence annotation·Sequences·References·Cross-refs·Entry info·DocumentsCustomize order

Names and origin

Protein namesRecommended name:
Protocadherin-1
Alternative name(s):
Cadherin-like protein 1
Protocadherin-42
Short name=PC42
Gene names
Name:PCDH1
OrganismHomo sapiens (Human) [Reference proteome]
Taxonomic identifier9606 [NCBI]
Taxonomic lineageEukaryotaMetazoaChordataCraniataVertebrataEuteleostomiMammaliaEutheriaEuarchontogliresPrimatesHaplorrhiniCatarrhiniHominidaeHomo

Protein attributes

Sequence length1060 AA.
Sequence statusComplete.
Sequence processingThe displayed sequence is further processed into a mature form.
Protein existenceEvidence at protein level

General annotation (Comments)

Function

May be involved in cell-cell interaction processes and in cell adhesion.

Subcellular location

Cell junction. Cell membrane; Single-pass type I membrane protein Probable. Note: Found at cell-cell boundaries and probably at cell-matrix boundaries.

Tissue specificity

Highly expressed in the brain and neuro-glial cells.

Developmental stage

Highest expression in adults.

Sequence similarities

Contains 7 cadherin domains.

Caution

It is uncertain whether Met-1 or Met-23 is the initiator.

Sequence caution

The sequence AAA36419.1 differs from that shown. Reason: Chimeric cDNA. N-terminal sequence identical to a region of chromosome 8.

Alternative products

This entry describes 3 isoforms produced by alternative splicing. [Align] [Select]
Isoform 1 (identifier: Q08174-1)

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.
Isoform 2 (identifier: Q08174-2)

Also known as: PC42-8;

The sequence of this isoform differs from the canonical sequence as follows:
     1034-1060: VGQPFQLSTPQPLPHPYHGAIWTEVWE → LPHRRVTFSA...AQTAKREIYL
Isoform 3 (identifier: Q08174-3)

The sequence of this isoform differs from the canonical sequence as follows:
     207-218: Missing.
Note: No experimental confirmation available.

Sequence annotation (Features)

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifier

Molecule processing

Signal peptide1 – 5757 Potential
Chain58 – 10601003Protocadherin-1
PRO_0000354078

Regions

Topological domain58 – 852795Extracellular Potential
Transmembrane853 – 87321Helical; Potential
Topological domain874 – 1060187Cytoplasmic Potential
Domain58 – 168111Cadherin 1
Domain169 – 280112Cadherin 2
Domain281 – 387107Cadherin 3
Domain396 – 506111Cadherin 4
Domain507 – 612106Cadherin 5
Domain613 – 715103Cadherin 6
Domain718 – 844127Cadherin 7

Amino acid modifications

Modified residue9181Phosphoserine Ref.8
Modified residue9491Phosphoserine Ref.5
Modified residue9621Phosphoserine Ref.5 Ref.8
Modified residue9841Phosphoserine Ref.8
Glycosylation3051N-linked (GlcNAc...) Ref.6
Glycosylation4031N-linked (GlcNAc...) Potential
Glycosylation6181N-linked (GlcNAc...) Potential
Glycosylation6621N-linked (GlcNAc...) Potential
Glycosylation8131N-linked (GlcNAc...) Ref.6
Glycosylation8181N-linked (GlcNAc...) Ref.6

Natural variations

Alternative sequence207 – 21812Missing in isoform 3.
VSP_035772
Alternative sequence1034 – 106027VGQPF…TEVWE → LPHRRVTFSATSQAQELQDP SQHSYYDSGLEESETPSSKS SSGPRLGPLALPEDHYERTT PDGSIGEMEHPENDLRPLPD VAMTGTCTRECSEFGHSDTC WMPGQSSPSRRTKSSALKLS TFVPYQDRGGQEPAGAGSPS PPEDRNTKTAPVRLLPSYSA FSHSSHDSCKDSATLEEIPL TQTSDFPPAATPASAQTAKR EIYL in isoform 2.
VSP_000703
Natural variant151L → F.
Corresponds to variant rs12517385 [ dbSNP | Ensembl ].
VAR_047530
Natural variant251H → P. Ref.4
Corresponds to variant rs12515587 [ dbSNP | Ensembl ].
VAR_047531
Natural variant5141A → T.
Corresponds to variant rs3822357 [ dbSNP | Ensembl ].
VAR_047532

Experimental info

Sequence conflict1471G → A in AAA36419. Ref.4
Sequence conflict2621S → T in AAA36419. Ref.4
Isoform 2:
Sequence conflict11561V → M in AAA36418. Ref.4

Sequences

Sequence LengthMass (Da)Tools
Isoform 1 [UniParc].

Last modified November 25, 2008. Version 2.
Checksum: 0F4F24F3EE607D04

FASTA1,060114,743
        10         20         30         40         50         60 
MDSGAGGRRC PEAALLILGP PRMEHLRHSP GPGGQRLLLP SMLLALLLLL APSPGHATRV 

        70         80         90        100        110        120 
VYKVPEEQPP NTLIGSLAAD YGFPDVGHLY KLEVGAPYLR VDGKTGDIFT TETSIDREGL 

       130        140        150        160        170        180 
RECQNQLPGD PCILEFEVSI TDLVQNGSPR LLEGQIEVQD INDNTPNFAS PVITLAIPEN 

       190        200        210        220        230        240 
TNIGSLFPIP LASDRDAGPN GVASYELQAG PEAQELFGLQ VAEDQEEKQP QLIVMGNLDR 

       250        260        270        280        290        300 
ERWDSYDLTI KVQDGGSPPR ASSALLRVTV LDTNDNAPKF ERPSYEAELS ENSPIGHSVI 

       310        320        330        340        350        360 
QVKANDSDQG ANAEIEYTFH QAPEVVRRLL RLDRNTGLIT VQGPVDREDL STLRFSVLAK 

       370        380        390        400        410        420 
DRGTNPKSAR AQVVVTVKDM NDNAPTIEIR GIGLVTHQDG MANISEDVAE ETAVALVQVS 

       430        440        450        460        470        480 
DRDEGENAAV TCVVAGDVPF QLRQASETGS DSKKKYFLQT TTPLDYEKVK DYTIEIVAVD 

       490        500        510        520        530        540 
SGNPPLSSTN SLKVQVVDVN DNAPVFTQSV TEVAFPENNK PGEVIAEITA SDADSGSNAE 

       550        560        570        580        590        600 
LVYSLEPEPA AKGLFTISPE TGEIQVKTSL DREQRESYEL KVVAADRGSP SLQGTATVLV 

       610        620        630        640        650        660 
NVLDCNDNDP KFMLSGYNFS VMENMPALSP VGMVTVIDGD KGENAQVQLS VEQDNGDFVI 

       670        680        690        700        710        720 
QNGTGTILSS LSFDREQQST YTFQLKAVDG GVPPRSAYVG VTINVLDEND NAPYITAPSN 

       730        740        750        760        770        780 
TSHKLLTPQT RLGETVSQVA AEDFDSGVNA ELIYSIAGGN PYGLFQIGSH SGAITLEKEI 

       790        800        810        820        830        840 
ERRHHGLHRL VVKVSDRGKP PRYGTALVHL YVNETLANRT LLETLLGHSL DTPLDIDIAG 

       850        860        870        880        890        900 
DPEYERSKQR GNILFGVVAG VVAVALLIAL AVLVRYCRQR EAKSGYQAGK KETKDLYAPK 

       910        920        930        940        950        960 
PSGKASKGNK SKGKKSKSPK PVKPVEDEDE AGLQKSLKFN LMSDAPGDSP RIHLPLNYPP 

       970        980        990       1000       1010       1020 
GSPDLGRHYR SNSPLPSIQL QPQSPSASKK HQVVQDLPPA NTFVGTGDTT STGSEQYSDY 

      1030       1040       1050       1060 
SYRTNPPKYP SKQVGQPFQL STPQPLPHPY HGAIWTEVWE 

« Hide

Isoform 2 (PC42-8) [UniParc].

Checksum: EF5A5BFCEE84A005
Show »

FASTA1,237133,722
Isoform 3 [UniParc].

Checksum: CED808AFD713D388
Show »

FASTA1,048113,502

References

« Hide 'large scale' references
[1]"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. expand/collapse author list , 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].
[2]Mural R.J., Istrail S., Sutton G.G., Florea L., Halpern A.L., Mobarry C.M., Lippert R., Walenz B., Shatkay H., Dew I., Miller J.R., Flanigan M.J., Edwards N.J., Bolanos R., Fasulo D., Halldorsson B.V., Hannenhalli S., Turner R. expand/collapse author list , Yooseph S., Lu F., Nusskern D.R., Shue B.C., Zheng X.H., Zhong F., Delcher A.L., Huson D.H., Kravitz S.A., Mouchard L., Reinert K., Remington K.A., Clark A.G., Waterman M.S., Eichler E.E., Adams M.D., Hunkapiller M.W., Myers E.W., Venter J.C.
Submitted (SEP-2005) to the EMBL/GenBank/DDBJ databases
Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
[3]"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: Brain.
[4]"Protocadherins: a large family of cadherin-related molecules in central nervous system."
Sano K., Tanihara H., Heimark R.L., Obata S., Davidson M., St John T., Taketani S., Suzuki S.
EMBO J. 12:2249-2256(1993) [PubMed] [Europe PMC] [Abstract]
Cited for: NUCLEOTIDE SEQUENCE [MRNA] OF 10-1060 (ISOFORM 3), NUCLEOTIDE SEQUENCE [MRNA] OF 980-1060 (ISOFORM 2), VARIANT PRO-25.
Tissue: Brain.
[5]"A quantitative atlas of mitotic phosphorylation."
Dephoure N., Zhou C., Villen J., Beausoleil S.A., Bakalarski C.E., Elledge S.J., Gygi S.P.
Proc. Natl. Acad. Sci. U.S.A. 105:10762-10767(2008) [PubMed] [Europe PMC] [Abstract]
Cited for: PHOSPHORYLATION [LARGE SCALE ANALYSIS] AT SER-949 AND SER-962, IDENTIFICATION BY MASS SPECTROMETRY [LARGE SCALE ANALYSIS].
Tissue: Cervix carcinoma.
[6]"Glycoproteomics analysis of human liver tissue by combination of multiple enzyme digestion and hydrazide chemistry."
Chen R., Jiang X., Sun D., Han G., Wang F., Ye M., Wang L., Zou H.
J. Proteome Res. 8:651-661(2009) [PubMed] [Europe PMC] [Abstract]
Cited for: GLYCOSYLATION [LARGE SCALE ANALYSIS] AT ASN-305; ASN-813 AND ASN-818.
Tissue: Liver.
[7]"Initial characterization of the human central proteome."
Burkard T.R., Planyavsky M., Kaupe I., Breitwieser F.P., Buerckstuemmer T., Bennett K.L., Superti-Furga G., Colinge J.
BMC Syst. Biol. 5:17-17(2011) [PubMed] [Europe PMC] [Abstract]
Cited for: IDENTIFICATION BY MASS SPECTROMETRY [LARGE SCALE ANALYSIS].
[8]"System-wide temporal characterization of the proteome and phosphoproteome of human embryonic stem cell differentiation."
Rigbolt K.T., Prokhorova T.A., Akimov V., Henningsen J., Johansen P.T., Kratchmarova I., Kassem M., Mann M., Olsen J.V., Blagoev B.
Sci. Signal. 4:RS3-RS3(2011) [PubMed] [Europe PMC] [Abstract]
Cited for: PHOSPHORYLATION [LARGE SCALE ANALYSIS] AT SER-918; SER-962 AND SER-984, IDENTIFICATION BY MASS SPECTROMETRY [LARGE SCALE ANALYSIS].
+Additional computationally mapped references.

Cross-references

Sequence databases

EMBL
GenBank
DDBJ
AC094107 Genomic DNA. No translation available.
CH471062 Genomic DNA. Translation: EAW61902.1.
BC035812 mRNA. Translation: AAH35812.1.
L11369 mRNA. Translation: AAA36418.1.
L11370 mRNA. Translation: AAA36419.1. Sequence problems.
RefSeqNP_001265542.1. NM_001278613.1.
NP_001265544.1. NM_001278615.1.
NP_002578.2. NM_002587.4.
NP_115796.2. NM_032420.3.
UniGeneHs.79769.

3D structure databases

ProteinModelPortalQ08174.
SMRQ08174. Positions 54-812.
ModBaseSearch...
MobiDBSearch...

Protein-protein interaction databases

BioGrid111130. 4 interactions.
IntActQ08174. 3 interactions.
MINTMINT-1185829.

PTM databases

PhosphoSiteQ08174.

Polymorphism databases

DMDM215273864.

Proteomic databases

PaxDbQ08174.
PRIDEQ08174.

Protocols and materials databases

DNASU5097.
StructuralBiologyKnowledgebaseSearch...

Genome annotation databases

EnsemblENST00000287008; ENSP00000287008; ENSG00000156453. [Q08174-2]
ENST00000394536; ENSP00000378043; ENSG00000156453. [Q08174-1]
ENST00000456271; ENSP00000403497; ENSG00000156453. [Q08174-3]
GeneID5097.
KEGGhsa:5097.
UCSCuc003llp.3. human. [Q08174-2]
uc003llq.3. human. [Q08174-1]

Organism-specific databases

CTD5097.
GeneCardsGC05M141232.
HGNCHGNC:8655. PCDH1.
HPAHPA047720.
HPA050538.
MIM603626. gene.
neXtProtNX_Q08174.
PharmGKBPA32994.
GenAtlasSearch...

Phylogenomic databases

eggNOGNOG118788.
HOGENOMHOG000234535.
HOVERGENHBG053523.
KOK16498.
OMAFPDVGHL.
OrthoDBEOG7WMCHN.
PhylomeDBQ08174.
TreeFamTF320624.

Gene expression databases

ArrayExpressQ08174.
BgeeQ08174.
CleanExHS_PCDH1.
GenevestigatorQ08174.

Family and domain databases

Gene3D2.60.40.60. 7 hits.
InterProIPR002126. Cadherin.
IPR015919. Cadherin-like.
IPR020894. Cadherin_CS.
IPR013164. Cadherin_N.
IPR013585. Protocadherin.
[Graphical view]
PfamPF00028. Cadherin. 6 hits.
PF08266. Cadherin_2. 1 hit.
PF08374. Protocadherin. 1 hit.
[Graphical view]
PRINTSPR00205. CADHERIN.
SMARTSM00112. CA. 6 hits.
[Graphical view]
SUPFAMSSF49313. SSF49313. 6 hits.
PROSITEPS00232. CADHERIN_1. 6 hits.
PS50268. CADHERIN_2. 7 hits.
[Graphical view]
ProtoNetSearch...

Other

ChiTaRSPCDH1. human.
GeneWikiPCDH1.
GenomeRNAi5097.
NextBio19664.
PROQ08174.
SOURCESearch...

Entry information

Entry namePCDH1_HUMAN
AccessionPrimary (citable) accession number: Q08174
Secondary accession number(s): Q8IUP2
Entry history
Integrated into UniProtKB/Swiss-Prot: October 19, 2002
Last sequence update: November 25, 2008
Last modified: April 16, 2014
This is version 121 of the entry and version 2 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