Q08174 (PCDH1_HUMAN) Reviewed, UniProtKB/Swiss-Prot
Last modified
May 1, 2013.
Version 114.
History...
Names·Attributes·General annotation·Ontologies·Alt products·Sequence annotation·Sequences·References·Cross-refs·Entry info·DocumentsCustomize order
Names·Attributes·General annotation·Ontologies·Alt products·Sequence annotation·Sequences·References·Cross-refs·Entry info·DocumentsCustomize orderNames and origin
| Protein names | Recommended name: Protocadherin-1 Alternative name(s): Cadherin-like protein 1 Protocadherin-42 Short name=PC42 | ||
| Gene names |
| ||
| Organism | Homo sapiens (Human) [Reference proteome] | ||
| Taxonomic identifier | 9606 [NCBI] | ||
| Taxonomic lineage | Eukaryota › Metazoa › Chordata › Craniata › Vertebrata › Euteleostomi › Mammalia › Eutheria › Euarchontoglires › Primates › Haplorrhini › Catarrhini › Hominidae › Homo![]() |
Protein attributes
| Sequence length | 1060 AA. |
| Sequence status | Complete. |
| Sequence processing | The displayed sequence is further processed into a mature form. |
| Protein existence | Evidence 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. |
Ontologies
| Keywords | |
|---|---|
| Biological process | Cell adhesion |
| Cellular component | Cell junction Cell membrane Membrane |
| Coding sequence diversity | Alternative splicing Polymorphism |
| Domain | Repeat Signal Transmembrane Transmembrane helix |
| Ligand | Calcium |
| PTM | Glycoprotein Phosphoprotein |
| Technical term | Complete proteome Reference proteome |
| Gene Ontology (GO) | |
| Biological_process | cell-cell signaling Traceable author statement Ref.4. Source: ProtInc homophilic cell adhesionInferred from electronic annotation. Source: InterPro nervous system developmentTraceable author statement Ref.4. Source: ProtInc |
| Cellular_component | cell-cell junction Traceable author statement Ref.4. Source: ProtInc integral to plasma membraneTraceable author statement Ref.4. Source: ProtInc |
| Molecular_function | calcium ion binding Inferred from electronic annotation. Source: InterPro |
| Complete GO annotation... | |
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 key | Position(s) | Length | Description | Graphical view | Feature identifier | ||||
Molecule processing | |||||||||
|---|---|---|---|---|---|---|---|---|---|
| Signal peptide | 1 – 57 | 57 | Potential | ||||||
| Chain | 58 – 1060 | 1003 | Protocadherin-1 | PRO_0000354078 | |||||
Regions | |||||||||
| Topological domain | 58 – 852 | 795 | Extracellular Potential | ||||||
| Transmembrane | 853 – 873 | 21 | Helical; Potential | ||||||
| Topological domain | 874 – 1060 | 187 | Cytoplasmic Potential | ||||||
| Domain | 58 – 168 | 111 | Cadherin 1 | ||||||
| Domain | 169 – 280 | 112 | Cadherin 2 | ||||||
| Domain | 281 – 387 | 107 | Cadherin 3 | ||||||
| Domain | 396 – 506 | 111 | Cadherin 4 | ||||||
| Domain | 507 – 612 | 106 | Cadherin 5 | ||||||
| Domain | 613 – 715 | 103 | Cadherin 6 | ||||||
| Domain | 718 – 844 | 127 | Cadherin 7 | ||||||
Amino acid modifications | |||||||||
| Modified residue | 918 | 1 | Phosphoserine Ref.8 | ||||||
| Modified residue | 949 | 1 | Phosphoserine Ref.5 | ||||||
| Modified residue | 962 | 1 | Phosphoserine Ref.5 Ref.8 | ||||||
| Modified residue | 984 | 1 | Phosphoserine Ref.8 | ||||||
| Glycosylation | 305 | 1 | N-linked (GlcNAc...) Ref.6 | ||||||
| Glycosylation | 403 | 1 | N-linked (GlcNAc...) Potential | ||||||
| Glycosylation | 618 | 1 | N-linked (GlcNAc...) Potential | ||||||
| Glycosylation | 662 | 1 | N-linked (GlcNAc...) Potential | ||||||
| Glycosylation | 813 | 1 | N-linked (GlcNAc...) Ref.6 | ||||||
| Glycosylation | 818 | 1 | N-linked (GlcNAc...) Ref.6 | ||||||
Natural variations | |||||||||
| Alternative sequence | 207 – 218 | 12 | Missing in isoform 3. | VSP_035772 | |||||
| Alternative sequence | 1034 – 1060 | 27 | VGQPF…TEVWE → LPHRRVTFSATSQAQELQDP SQHSYYDSGLEESETPSSKS SSGPRLGPLALPEDHYERTT PDGSIGEMEHPENDLRPLPD VAMTGTCTRECSEFGHSDTC WMPGQSSPSRRTKSSALKLS TFVPYQDRGGQEPAGAGSPS PPEDRNTKTAPVRLLPSYSA FSHSSHDSCKDSATLEEIPL TQTSDFPPAATPASAQTAKR EIYL in isoform 2. | VSP_000703 | |||||
| Natural variant | 15 | 1 | L → F. Corresponds to variant rs12517385 [ dbSNP | Ensembl ]. | VAR_047530 | |||||
| Natural variant | 25 | 1 | H → P. Ref.4 Corresponds to variant rs12515587 [ dbSNP | Ensembl ]. | VAR_047531 | |||||
| Natural variant | 514 | 1 | A → T. Corresponds to variant rs3822357 [ dbSNP | Ensembl ]. | VAR_047532 | |||||
Experimental info | |||||||||
| Sequence conflict | 147 | 1 | G → A in AAA36419. Ref.4 | ||||||
| Sequence conflict | 262 | 1 | S → T in AAA36419. Ref.4 | ||||||
| Isoform 2: | |||||||||
| Sequence conflict | 1156 | 1 | V → M in AAA36418. Ref.4 | ||||||
Sequences
| ||||||||||||||||||||||||||||||
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. 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. 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, MASS SPECTROMETRY. 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, MASS SPECTROMETRY. 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, MASS SPECTROMETRY. |
| + | 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. |
| IPI | IPI00000024. IPI00872579. IPI00914969. |
| RefSeq | NP_002578.2. NM_002587.3. NP_115796.2. NM_032420.2. |
| UniGene | Hs.79769. |
3D structure databases | |
| ProteinModelPortal | Q08174. |
| ModBase | Search... |
Protein-protein interaction databases | |
| IntAct | Q08174. 1 interaction. |
| MINT | MINT-1185829. |
PTM databases | |
| PhosphoSite | Q08174. |
Polymorphism databases | |
| DMDM | 215273864. |
Proteomic databases | |
| PaxDb | Q08174. |
| PRIDE | Q08174. |
Protocols and materials databases | |
| DNASU | 5097. |
| StructuralBiologyKnowledgebase | Search... |
Genome annotation databases | |
| Ensembl | ENST00000287008; ENSP00000287008; ENSG00000156453. ENST00000394536; ENSP00000378043; ENSG00000156453. ENST00000456271; ENSP00000403497; ENSG00000156453. |
| GeneID | 5097. |
| KEGG | hsa:5097. |
| UCSC | uc003llp.3. human. uc003llq.3. human. |
Organism-specific databases | |
| CTD | 5097. |
| GeneCards | GC05M141232. |
| HGNC | HGNC:8655. PCDH1. |
| HPA | HPA047720. HPA050538. |
| MIM | 603626. gene. |
| neXtProt | NX_Q08174. |
| PharmGKB | PA32994. |
| GenAtlas | Search... |
Phylogenomic databases | |
| eggNOG | NOG118788. |
| HOGENOM | HOG000234535. |
| HOVERGEN | HBG053523. |
| KO | K16498. |
| OMA | FPDVGHL. |
Gene expression databases | |
| ArrayExpress | Q08174. |
| Bgee | Q08174. |
| CleanEx | HS_PCDH1. |
| Genevestigator | Q08174. |
| GermOnline | ENSG00000156453. Homo sapiens. |
Family and domain databases | |
| Gene3D | 2.60.40.60. 7 hits. |
| InterPro | IPR002126. Cadherin. IPR015919. Cadherin-like. IPR020894. Cadherin_CS. IPR013164. Cadherin_N. IPR013585. Protocadherin. [Graphical view] |
| Pfam | PF00028. Cadherin. 6 hits. PF08266. Cadherin_2. 1 hit. PF08374. Protocadherin. 1 hit. [Graphical view] |
| PRINTS | PR00205. CADHERIN. |
| SMART | SM00112. CA. 6 hits. [Graphical view] |
| SUPFAM | SSF49313. Cadherin. 6 hits. |
| PROSITE | PS00232. CADHERIN_1. 6 hits. PS50268. CADHERIN_2. 7 hits. [Graphical view] |
| ProtoNet | Search... |
Other | |
| ChiTaRS | PCDH1. human. |
| GenomeRNAi | 5097. |
| NextBio | 19664. |
| SOURCE | Search... |
Entry information
| Entry name | PCDH1_HUMAN | ||||||||
| Accession | Primary (citable) accession number: Q08174 Secondary accession number(s): Q8IUP2 | ||||||||
| Entry history |
| ||||||||
| Entry status | Reviewed (UniProtKB/Swiss-Prot) | ||||||||
| Annotation program | Chordata Protein Annotation Program | ||||||||
| Disclaimer | Any 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
| Human chromosome 5 Human chromosome 5: entries, gene names and cross-references to MIM |
| Human entries with polymorphisms or disease mutations List of human entries with polymorphisms or disease mutations |
| Human polymorphisms and disease mutations Index of human polymorphisms and disease mutations |
| MIM cross-references Online Mendelian Inheritance in Man (MIM) cross-references in UniProtKB/Swiss-Prot |
| SIMILARITY comments Index of protein domains and families |

Clusters with
