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Entry version 171 (17 Jun 2020)
Sequence version 2 (25 Nov 2008)
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Protein

Protocadherin-1

Gene

PCDH1

Organism
Homo sapiens (Human)
Status
Reviewed-Annotation score:

Annotation score:5 out of 5

<p>The annotation score provides a heuristic measure of the annotation content of a UniProtKB entry or proteome. This score <strong>cannot</strong> be used as a measure of the accuracy of the annotation as we cannot define the 'correct annotation' for any given protein.<p><a href='/help/annotation_score' target='_top'>More...</a></p>
-Experimental evidence at protein leveli <p>This indicates the type of evidence that supports the existence of the protein. Note that the 'protein existence' evidence does not give information on the accuracy or correctness of the sequence(s) displayed.<p><a href='/help/protein_existence' target='_top'>More...</a></p>

<p>This section provides any useful information about the protein, mostly biological knowledge.<p><a href='/help/function_section' target='_top'>More...</a></p>Functioni

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

Caution

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

<p>The <a href="http://www.geneontology.org/">Gene Ontology (GO)</a> project provides a set of hierarchical controlled vocabulary split into 3 categories:<p><a href='/help/gene_ontology' target='_top'>More...</a></p>GO - Molecular functioni

GO - Biological processi

<p>UniProtKB Keywords constitute a <a href="http://www.uniprot.org/keywords">controlled vocabulary</a> with a hierarchical structure. Keywords summarise the content of a UniProtKB entry and facilitate the search for proteins of interest.<p><a href='/help/keywords' target='_top'>More...</a></p>Keywordsi

Biological processCell adhesion
LigandCalcium

<p>This section provides information about the protein and gene name(s) and synonym(s) and about the organism that is the source of the protein sequence.<p><a href='/help/names_and_taxonomy_section' target='_top'>More...</a></p>Names & Taxonomyi

<p>This subsection of the <a href="http://www.uniprot.org/help/names%5Fand%5Ftaxonomy%5Fsection">Names and taxonomy</a> section provides an exhaustive list of all names of the protein, from commonly used to obsolete, to allow unambiguous identification of a protein.<p><a href='/help/protein_names' target='_top'>More...</a></p>Protein namesi
Recommended name:
Protocadherin-1
Alternative name(s):
Cadherin-like protein 1
Protocadherin-42
Short name:
PC42
<p>This subsection of the <a href="http://www.uniprot.org/help/names%5Fand%5Ftaxonomy%5Fsection">Names and taxonomy</a> section indicates the name(s) of the gene(s) that code for the protein sequence(s) described in the entry. Four distinct tokens exist: 'Name', 'Synonyms', 'Ordered locus names' and 'ORF names'.<p><a href='/help/gene_name' target='_top'>More...</a></p>Gene namesi
Name:PCDH1
<p>This subsection of the <a href="http://www.uniprot.org/help/names%5Fand%5Ftaxonomy%5Fsection">Names and taxonomy</a> section provides information on the name(s) of the organism that is the source of the protein sequence.<p><a href='/help/organism-name' target='_top'>More...</a></p>OrganismiHomo sapiens (Human)
<p>This subsection of the <a href="http://www.uniprot.org/help/names%5Fand%5Ftaxonomy%5Fsection">Names and taxonomy</a> section shows the unique identifier assigned by the NCBI to the source organism of the protein. This is known as the 'taxonomic identifier' or 'taxid'.<p><a href='/help/taxonomic_identifier' target='_top'>More...</a></p>Taxonomic identifieri9606 [NCBI]
<p>This subsection of the <a href="http://www.uniprot.org/help/names%5Fand%5Ftaxonomy%5Fsection">Names and taxonomy</a> section contains the taxonomic hierarchical classification lineage of the source organism. It lists the nodes as they appear top-down in the taxonomic tree, with the more general grouping listed first.<p><a href='/help/taxonomic_lineage' target='_top'>More...</a></p>Taxonomic lineageiEukaryotaMetazoaChordataCraniataVertebrataEuteleostomiMammaliaEutheriaEuarchontogliresPrimatesHaplorrhiniCatarrhiniHominidaeHomo
<p>This subsection of the <a href="http://www.uniprot.org/help/names%5Fand%5Ftaxonomy%5Fsection">Names and taxonomy</a> section is present for entries that are part of a <a href="http://www.uniprot.org/proteomes">proteome</a>, i.e. of a set of proteins thought to be expressed by organisms whose genomes have been completely sequenced.<p><a href='/help/proteomes_manual' target='_top'>More...</a></p>Proteomesi
  • UP000005640 <p>A UniProt <a href="http://www.uniprot.org/manual/proteomes%5Fmanual">proteome</a> can consist of several components.<br></br>The component name refers to the genomic component encoding a set of proteins.<p><a href='/help/proteome_component' target='_top'>More...</a></p> Componenti: Chromosome 5

Organism-specific databases

Eukaryotic Pathogen Database Resources

More...
EuPathDBi
HostDB:ENSG00000156453.13

Human Gene Nomenclature Database

More...
HGNCi
HGNC:8655 PCDH1

Online Mendelian Inheritance in Man (OMIM)

More...
MIMi
603626 gene

neXtProt; the human protein knowledge platform

More...
neXtProti
NX_Q08174

<p>This section provides information on the location and the topology of the mature protein in the cell.<p><a href='/help/subcellular_location_section' target='_top'>More...</a></p>Subcellular locationi

Extracellular region or secreted Cytosol Plasma membrane Cytoskeleton Lysosome Endosome Peroxisome ER Golgi apparatus Nucleus Mitochondrion Manual annotation Automatic computational assertionGraphics by Christian Stolte & Seán O’Donoghue; Source: COMPARTMENTS

Topology

Feature keyPosition(s)DescriptionActionsGraphical viewLength
<p>This subsection of the <a href="http://www.uniprot.org/help/subcellular%5Flocation%5Fsection">'Subcellular location'</a> section describes the subcellular compartment where each non-membrane region of a membrane-spanning protein is found.<p><a href='/help/topo_dom' target='_top'>More...</a></p>Topological domaini58 – 852ExtracellularSequence analysisAdd BLAST795
<p>This subsection of the <a href="http://www.uniprot.org/help/subcellular%5Flocation%5Fsection">'Subcellular location'</a> section describes the extent of a membrane-spanning region of the protein. It denotes the presence of both alpha-helical transmembrane regions and the membrane spanning regions of beta-barrel transmembrane proteins.<p><a href='/help/transmem' target='_top'>More...</a></p>Transmembranei853 – 873HelicalSequence analysisAdd BLAST21
Topological domaini874 – 1060CytoplasmicSequence analysisAdd BLAST187

Keywords - Cellular componenti

Cell junction, Cell membrane, Membrane

<p>This section provides information on the disease(s) and phenotype(s) associated with a protein.<p><a href='/help/pathology_and_biotech_section' target='_top'>More...</a></p>Pathology & Biotechi

Organism-specific databases

DisGeNET

More...
DisGeNETi
5097

Open Targets

More...
OpenTargetsi
ENSG00000156453

The Pharmacogenetics and Pharmacogenomics Knowledge Base

More...
PharmGKBi
PA32994

Miscellaneous databases

Pharos NIH Druggable Genome Knowledgebase

More...
Pharosi
Q08174 Tbio

Polymorphism and mutation databases

BioMuta curated single-nucleotide variation and disease association database

More...
BioMutai
PCDH1

Domain mapping of disease mutations (DMDM)

More...
DMDMi
215273864

<p>This section describes post-translational modifications (PTMs) and/or processing events.<p><a href='/help/ptm_processing_section' target='_top'>More...</a></p>PTM / Processingi

Molecule processing

Feature keyPosition(s)DescriptionActionsGraphical viewLength
<p>This subsection of the 'PTM / Processing' section denotes the presence of an N-terminal signal peptide.<p><a href='/help/signal' target='_top'>More...</a></p>Signal peptidei1 – 57Sequence analysisAdd BLAST57
<p>This subsection of the 'PTM / Processing' section describes the extent of a polypeptide chain in the mature protein following processing or proteolytic cleavage.<p><a href='/help/chain' target='_top'>More...</a></p>ChainiPRO_000035407858 – 1060Protocadherin-1Add BLAST1003

Amino acid modifications

Feature keyPosition(s)DescriptionActionsGraphical viewLength
<p>This subsection of the <a href="http://www.uniprot.org/help/ptm%5Fprocessing%5Fsection">PTM / Processing</a> section specifies the position and type of each covalently attached glycan group (mono-, di-, or polysaccharide).<p><a href='/help/carbohyd' target='_top'>More...</a></p>Glycosylationi305N-linked (GlcNAc...) asparagine1 Publication1
Glycosylationi403N-linked (GlcNAc...) asparagineSequence analysis1
Glycosylationi618N-linked (GlcNAc...) asparagineSequence analysis1
Glycosylationi662N-linked (GlcNAc...) asparagineSequence analysis1
Glycosylationi813N-linked (GlcNAc...) asparagine1 Publication1
Glycosylationi818N-linked (GlcNAc...) asparagine1 Publication1
<p>This subsection of the 'PTM / Processing' section specifies the position and type of each modified residue excluding <a href="http://www.uniprot.org/manual/lipid">lipids</a>, <a href="http://www.uniprot.org/manual/carbohyd">glycans</a> and <a href="http://www.uniprot.org/manual/crosslnk">protein cross-links</a>.<p><a href='/help/mod_res' target='_top'>More...</a></p>Modified residuei918PhosphoserineCombined sources1
Modified residuei949PhosphoserineCombined sources1
Modified residuei962PhosphoserineCombined sources1
Modified residuei984PhosphoserineCombined sources1
Isoform 2 (identifier: Q08174-2)
Modified residuei1173PhosphoserineCombined sources1

Keywords - PTMi

Glycoprotein, Phosphoprotein

Proteomic databases

The CPTAC Assay portal

More...
CPTACi
CPTAC-1310

Encyclopedia of Proteome Dynamics

More...
EPDi
Q08174

jPOST - Japan Proteome Standard Repository/Database

More...
jPOSTi
Q08174

MassIVE - Mass Spectrometry Interactive Virtual Environment

More...
MassIVEi
Q08174

MaxQB - The MaxQuant DataBase

More...
MaxQBi
Q08174

PaxDb, a database of protein abundance averages across all three domains of life

More...
PaxDbi
Q08174

PeptideAtlas

More...
PeptideAtlasi
Q08174

PRoteomics IDEntifications database

More...
PRIDEi
Q08174

ProteomicsDB: a multi-organism proteome resource

More...
ProteomicsDBi
58575 [Q08174-1]
58576 [Q08174-2]

PTM databases

iPTMnet integrated resource for PTMs in systems biology context

More...
iPTMneti
Q08174

Comprehensive resource for the study of protein post-translational modifications (PTMs) in human, mouse and rat.

More...
PhosphoSitePlusi
Q08174

<p>This section provides information on the expression of a gene at the mRNA or protein level in cells or in tissues of multicellular organisms.<p><a href='/help/expression_section' target='_top'>More...</a></p>Expressioni

<p>This subsection of the 'Expression' section provides information on the expression of a gene at the mRNA or protein level in cells or in tissues of multicellular organisms. By default, the information is derived from experiments at the mRNA level, unless specified 'at protein level'.<br></br>Examples: <a href="http://www.uniprot.org/uniprot/P92958#expression">P92958</a>, <a href="http://www.uniprot.org/uniprot/Q8TDN4#expression">Q8TDN4</a>, <a href="http://www.uniprot.org/uniprot/O14734#expression">O14734</a><p><a href='/help/tissue_specificity' target='_top'>More...</a></p>Tissue specificityi

Highly expressed in the brain and neuro-glial cells.

<p>This subsection of the 'Expression' section provides information on the expression of the gene product at various stages of a cell, tissue or organism development. By default, the information is derived from experiments at the mRNA level, unless specified 'at the protein level'.<p><a href='/help/developmental_stage' target='_top'>More...</a></p>Developmental stagei

Highest expression in adults.

Gene expression databases

Bgee dataBase for Gene Expression Evolution

More...
Bgeei
ENSG00000156453 Expressed in lower esophagus mucosa and 213 other tissues

ExpressionAtlas, Differential and Baseline Expression

More...
ExpressionAtlasi
Q08174 baseline and differential

Genevisible search portal to normalized and curated expression data from Genevestigator

More...
Genevisiblei
Q08174 HS

Organism-specific databases

Human Protein Atlas

More...
HPAi
ENSG00000156453 Low tissue specificity

<p>This section provides information on the quaternary structure of a protein and on interaction(s) with other proteins or protein complexes.<p><a href='/help/interaction_section' target='_top'>More...</a></p>Interactioni

Protein-protein interaction databases

The Biological General Repository for Interaction Datasets (BioGRID)

More...
BioGRIDi
111130, 15 interactors

Protein interaction database and analysis system

More...
IntActi
Q08174, 12 interactors

Molecular INTeraction database

More...
MINTi
Q08174

STRING: functional protein association networks

More...
STRINGi
9606.ENSP00000287008

Miscellaneous databases

RNAct, Protein-RNA interaction predictions for model organisms.

More...
RNActi
Q08174 protein

<p>This section provides information on the tertiary and secondary structure of a protein.<p><a href='/help/structure_section' target='_top'>More...</a></p>Structurei

Secondary structure

11060
Legend: HelixTurnBeta strandPDB Structure known for this area
Show more details

3D structure databases

SWISS-MODEL Repository - a database of annotated 3D protein structure models

More...
SMRi
Q08174

Database of comparative protein structure models

More...
ModBasei
Search...

Protein Data Bank in Europe - Knowledge Base

More...
PDBe-KBi
Search...

<p>This section provides information on sequence similarities with other proteins and the domain(s) present in a protein.<p><a href='/help/family_and_domains_section' target='_top'>More...</a></p>Family & Domainsi

Domains and Repeats

Feature keyPosition(s)DescriptionActionsGraphical viewLength
<p>This subsection of the <a href="http://www.uniprot.org/help/family%5Fand%5Fdomains%5Fsection">Family and Domains</a> section describes the position and type of a domain, which is defined as a specific combination of secondary structures organized into a characteristic three-dimensional structure or fold.<p><a href='/help/domain' target='_top'>More...</a></p>Domaini58 – 168Cadherin 1PROSITE-ProRule annotationAdd BLAST111
Domaini169 – 280Cadherin 2PROSITE-ProRule annotationAdd BLAST112
Domaini281 – 387Cadherin 3PROSITE-ProRule annotationAdd BLAST107
Domaini396 – 506Cadherin 4PROSITE-ProRule annotationAdd BLAST111
Domaini507 – 612Cadherin 5PROSITE-ProRule annotationAdd BLAST106
Domaini613 – 715Cadherin 6PROSITE-ProRule annotationAdd BLAST103
Domaini718 – 844Cadherin 7PROSITE-ProRule annotationAdd BLAST127

Keywords - Domaini

Repeat, Signal, Transmembrane, Transmembrane helix

Phylogenomic databases

evolutionary genealogy of genes: Non-supervised Orthologous Groups

More...
eggNOGi
ENOG410II7Q Eukaryota
ENOG410XPHP LUCA

Ensembl GeneTree

More...
GeneTreei
ENSGT00940000155521

The HOGENOM Database of Homologous Genes from Fully Sequenced Organisms

More...
HOGENOMi
CLU_006480_5_3_1

InParanoid: Eukaryotic Ortholog Groups

More...
InParanoidi
Q08174

KEGG Orthology (KO)

More...
KOi
K16498

Identification of Orthologs from Complete Genome Data

More...
OMAi
NASYKHI

Database of Orthologous Groups

More...
OrthoDBi
97260at2759

Database for complete collections of gene phylogenies

More...
PhylomeDBi
Q08174

TreeFam database of animal gene trees

More...
TreeFami
TF320624

Family and domain databases

Integrated resource of protein families, domains and functional sites

More...
InterProi
View protein in InterPro
IPR002126 Cadherin-like_dom
IPR015919 Cadherin-like_sf
IPR020894 Cadherin_CS
IPR013164 Cadherin_N
IPR013585 Protocadherin

Pfam protein domain database

More...
Pfami
View protein in Pfam
PF00028 Cadherin, 6 hits
PF08266 Cadherin_2, 1 hit
PF08374 Protocadherin, 1 hit

Protein Motif fingerprint database; a protein domain database

More...
PRINTSi
PR00205 CADHERIN

Simple Modular Architecture Research Tool; a protein domain database

More...
SMARTi
View protein in SMART
SM00112 CA, 6 hits

Superfamily database of structural and functional annotation

More...
SUPFAMi
SSF49313 SSF49313, 6 hits

PROSITE; a protein domain and family database

More...
PROSITEi
View protein in PROSITE
PS00232 CADHERIN_1, 6 hits
PS50268 CADHERIN_2, 7 hits

<p>This section displays by default the canonical protein sequence and upon request all isoforms described in the entry. It also includes information pertinent to the sequence(s), including <a href="http://www.uniprot.org/help/sequence%5Flength">length</a> and <a href="http://www.uniprot.org/help/sequences">molecular weight</a>. The information is filed in different subsections. The current subsections and their content are listed below:<p><a href='/help/sequences_section' target='_top'>More...</a></p>Sequences (2+)i

<p>This subsection of the <a href="http://www.uniprot.org/help/sequences%5Fsection">Sequence</a> section indicates if the <a href="http://www.uniprot.org/help/canonical%5Fand%5Fisoforms">canonical sequence</a> displayed by default in the entry is complete or not.<p><a href='/help/sequence_status' target='_top'>More...</a></p>Sequence statusi: Complete.

<p>This subsection of the <a href="http://www.uniprot.org/help/sequences%5Fsection">Sequence</a> section indicates if the <a href="http://www.uniprot.org/help/canonical%5Fand%5Fisoforms">canonical sequence</a> displayed by default in the entry is in its mature form or if it represents the precursor.<p><a href='/help/sequence_processing' target='_top'>More...</a></p>Sequence processingi: The displayed sequence is further processed into a mature form.

This entry describes 2 <p>This subsection of the 'Sequence' section lists the alternative protein sequences (isoforms) that can be generated from the same gene by a single or by the combination of up to four biological events (alternative promoter usage, alternative splicing, alternative initiation and ribosomal frameshifting). Additionally, this section gives relevant information on each alternative protein isoform. This section is only present in reviewed entries, i.e. in UniProtKB/Swiss-Prot.<p><a href='/help/alternative_products' target='_top'>More...</a></p> isoformsi produced by alternative splicing. AlignAdd to basket

This entry has 2 described isoforms and 4 potential isoforms that are computationally mapped.Show allAlign All

Isoform 1 (identifier: Q08174-1) [UniParc]FASTAAdd to basket

This isoform has been chosen as the <div> <p><b>What is the canonical sequence?</b><p><a href='/help/canonical_and_isoforms' target='_top'>More...</a></p>canonicali 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
MDSGAGGRRC PEAALLILGP PRMEHLRHSP GPGGQRLLLP SMLLALLLLL
60 70 80 90 100
APSPGHATRV VYKVPEEQPP NTLIGSLAAD YGFPDVGHLY KLEVGAPYLR
110 120 130 140 150
VDGKTGDIFT TETSIDREGL RECQNQLPGD PCILEFEVSI TDLVQNGSPR
160 170 180 190 200
LLEGQIEVQD INDNTPNFAS PVITLAIPEN TNIGSLFPIP LASDRDAGPN
210 220 230 240 250
GVASYELQAG PEAQELFGLQ VAEDQEEKQP QLIVMGNLDR ERWDSYDLTI
260 270 280 290 300
KVQDGGSPPR ASSALLRVTV LDTNDNAPKF ERPSYEAELS ENSPIGHSVI
310 320 330 340 350
QVKANDSDQG ANAEIEYTFH QAPEVVRRLL RLDRNTGLIT VQGPVDREDL
360 370 380 390 400
STLRFSVLAK DRGTNPKSAR AQVVVTVKDM NDNAPTIEIR GIGLVTHQDG
410 420 430 440 450
MANISEDVAE ETAVALVQVS DRDEGENAAV TCVVAGDVPF QLRQASETGS
460 470 480 490 500
DSKKKYFLQT TTPLDYEKVK DYTIEIVAVD SGNPPLSSTN SLKVQVVDVN
510 520 530 540 550
DNAPVFTQSV TEVAFPENNK PGEVIAEITA SDADSGSNAE LVYSLEPEPA
560 570 580 590 600
AKGLFTISPE TGEIQVKTSL DREQRESYEL KVVAADRGSP SLQGTATVLV
610 620 630 640 650
NVLDCNDNDP KFMLSGYNFS VMENMPALSP VGMVTVIDGD KGENAQVQLS
660 670 680 690 700
VEQDNGDFVI QNGTGTILSS LSFDREQQST YTFQLKAVDG GVPPRSAYVG
710 720 730 740 750
VTINVLDEND NAPYITAPSN TSHKLLTPQT RLGETVSQVA AEDFDSGVNA
760 770 780 790 800
ELIYSIAGGN PYGLFQIGSH SGAITLEKEI ERRHHGLHRL VVKVSDRGKP
810 820 830 840 850
PRYGTALVHL YVNETLANRT LLETLLGHSL DTPLDIDIAG DPEYERSKQR
860 870 880 890 900
GNILFGVVAG VVAVALLIAL AVLVRYCRQR EAKSGYQAGK KETKDLYAPK
910 920 930 940 950
PSGKASKGNK SKGKKSKSPK PVKPVEDEDE AGLQKSLKFN LMSDAPGDSP
960 970 980 990 1000
RIHLPLNYPP GSPDLGRHYR SNSPLPSIQL QPQSPSASKK HQVVQDLPPA
1010 1020 1030 1040 1050
NTFVGTGDTT STGSEQYSDY SYRTNPPKYP SKQVGQPFQL STPQPLPHPY
1060
HGAIWTEVWE
Length:1,060
Mass (Da):114,743
Last modified:November 25, 2008 - v2
<p>The checksum is a form of redundancy check that is calculated from the sequence. It is useful for tracking sequence updates.</p> <p>It should be noted that while, in theory, two different sequences could have the same checksum value, the likelihood that this would happen is extremely low.</p> <p>However UniProtKB may contain entries with identical sequences in case of multiple genes (paralogs).</p> <p>The checksum is computed as the sequence 64-bit Cyclic Redundancy Check value (CRC64) using the generator polynomial: x<sup>64</sup> + x<sup>4</sup> + x<sup>3</sup> + x + 1. The algorithm is described in the ISO 3309 standard. </p> <p class="publication">Press W.H., Flannery B.P., Teukolsky S.A. and Vetterling W.T.<br /> <strong>Cyclic redundancy and other checksums</strong><br /> <a href="http://www.nrbook.com/b/bookcpdf.php">Numerical recipes in C 2nd ed., pp896-902, Cambridge University Press (1993)</a>)</p> Checksum:i0F4F24F3EE607D04
GO
Isoform 2 (identifier: Q08174-2) [UniParc]FASTAAdd to basket
Also known as: PC42-8

The sequence of this isoform differs from the canonical sequence as follows:
     1034-1060: VGQPFQLSTPQPLPHPYHGAIWTEVWE → LPHRRVTFSA...AQTAKREIYL

Show »
Length:1,237
Mass (Da):133,722
Checksum:iEF5A5BFCEE84A005
GO

<p>In eukaryotic reference proteomes, unreviewed entries that are likely to belong to the same gene are computationally mapped, based on gene identifiers from Ensembl, EnsemblGenomes and model organism databases.<p><a href='/help/gene_centric_isoform_mapping' target='_top'>More...</a></p>Computationally mapped potential isoform sequencesi

There are 4 potential isoforms mapped to this entry.BLASTAlignShow allAdd to basket
EntryEntry nameProtein names
Gene namesLengthAnnotation
D6RAX3D6RAX3_HUMAN
Protocadherin-1
PCDH1
382Annotation score:

Annotation score:1 out of 5

<p>The annotation score provides a heuristic measure of the annotation content of a UniProtKB entry or proteome. This score <strong>cannot</strong> be used as a measure of the accuracy of the annotation as we cannot define the 'correct annotation' for any given protein.<p><a href='/help/annotation_score' target='_top'>More...</a></p>
D6RBG2D6RBG2_HUMAN
Protocadherin-1
PCDH1
150Annotation score:

Annotation score:1 out of 5

<p>The annotation score provides a heuristic measure of the annotation content of a UniProtKB entry or proteome. This score <strong>cannot</strong> be used as a measure of the accuracy of the annotation as we cannot define the 'correct annotation' for any given protein.<p><a href='/help/annotation_score' target='_top'>More...</a></p>
H0Y9F5H0Y9F5_HUMAN
Protocadherin-1
PCDH1
126Annotation score:

Annotation score:1 out of 5

<p>The annotation score provides a heuristic measure of the annotation content of a UniProtKB entry or proteome. This score <strong>cannot</strong> be used as a measure of the accuracy of the annotation as we cannot define the 'correct annotation' for any given protein.<p><a href='/help/annotation_score' target='_top'>More...</a></p>
H0Y9I5H0Y9I5_HUMAN
Protocadherin-1
PCDH1
17Annotation score:

Annotation score:1 out of 5

<p>The annotation score provides a heuristic measure of the annotation content of a UniProtKB entry or proteome. This score <strong>cannot</strong> be used as a measure of the accuracy of the annotation as we cannot define the 'correct annotation' for any given protein.<p><a href='/help/annotation_score' target='_top'>More...</a></p>

<p>This subsection of the 'Sequence' section reports difference(s) between the protein sequence shown in the UniProtKB entry and other available protein sequences derived from the same gene.<p><a href='/help/sequence_caution' target='_top'>More...</a></p>Sequence cautioni

The sequence AAA36419 differs from that shown. Probable cloning artifact.Curated

Experimental Info

Feature keyPosition(s)DescriptionActionsGraphical viewLength
<p>This subsection of the 'Sequence' section reports difference(s) between the canonical sequence (displayed by default in the entry) and the different sequence submissions merged in the entry. These various submissions may originate from different sequencing projects, different types of experiments, or different biological samples. Sequence conflicts are usually of unknown origin.<p><a href='/help/conflict' target='_top'>More...</a></p>Sequence conflicti147G → A in AAA36419 (PubMed:8508762).Curated1
Sequence conflicti262S → T in AAA36419 (PubMed:8508762).Curated1
Isoform 2 (identifier: Q08174-2)
Sequence conflicti1156V → M in AAA36418 (PubMed:8508762).Curated1

Natural variant

Feature keyPosition(s)DescriptionActionsGraphical viewLength
<p>This subsection of the 'Sequence' section describes natural variant(s) of the protein sequence.<p><a href='/help/variant' target='_top'>More...</a></p>Natural variantiVAR_04753015L → F. Corresponds to variant dbSNP:rs12517385Ensembl.1
Natural variantiVAR_04753125H → P1 PublicationCorresponds to variant dbSNP:rs12515587Ensembl.1
Natural variantiVAR_047532514A → T. Corresponds to variant dbSNP:rs3822357Ensembl.1

Alternative sequence

Feature keyPosition(s)DescriptionActionsGraphical viewLength
<p>This subsection of the 'Sequence' section describes the sequence of naturally occurring alternative protein isoform(s). The changes in the amino acid sequence may be due to alternative splicing, alternative promoter usage, alternative initiation, or ribosomal frameshifting.<p><a href='/help/var_seq' target='_top'>More...</a></p>Alternative sequenceiVSP_0007031034 – 1060VGQPF…TEVWE → LPHRRVTFSATSQAQELQDP SQHSYYDSGLEESETPSSKS SSGPRLGPLALPEDHYERTT PDGSIGEMEHPENDLRPLPD VAMTGTCTRECSEFGHSDTC WMPGQSSPSRRTKSSALKLS TFVPYQDRGGQEPAGAGSPS PPEDRNTKTAPVRLLPSYSA FSHSSHDSCKDSATLEEIPL TQTSDFPPAATPASAQTAKR EIYL in isoform 2. 1 PublicationAdd BLAST27

Sequence databases

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EMBL nucleotide sequence database

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EMBLi

GenBank nucleotide sequence database

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GenBanki

DNA Data Bank of Japan; a nucleotide sequence database

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DDBJi
Links Updated
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.

The Consensus CDS (CCDS) project

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CCDSi
CCDS4267.1 [Q08174-2]
CCDS43375.1 [Q08174-1]

NCBI Reference Sequences

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RefSeqi
NP_001265542.1, NM_001278613.1
NP_001265544.1, NM_001278615.1
NP_002578.2, NM_002587.4 [Q08174-1]
NP_115796.2, NM_032420.3 [Q08174-2]

Genome annotation databases

Ensembl eukaryotic genome annotation project

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Ensembli
ENST00000287008; ENSP00000287008; ENSG00000156453 [Q08174-2]
ENST00000394536; ENSP00000378043; ENSG00000156453 [Q08174-1]

Database of genes from NCBI RefSeq genomes

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GeneIDi
5097

KEGG: Kyoto Encyclopedia of Genes and Genomes

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KEGGi
hsa:5097

UCSC genome browser

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UCSCi
uc003llp.4 human [Q08174-1]

Keywords - Coding sequence diversityi

Alternative splicing, Polymorphism

<p>This section provides links to proteins that are similar to the protein sequence(s) described in this entry at different levels of sequence identity thresholds (100%, 90% and 50%) based on their membership in UniProt Reference Clusters (<a href="http://www.uniprot.org/help/uniref">UniRef</a>).<p><a href='/help/similar_proteins_section' target='_top'>More...</a></p>Similar proteinsi

<p>This section is used to point to information related to entries and found in data collections other than UniProtKB.<p><a href='/help/cross_references_section' target='_top'>More...</a></p>Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
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.
CCDSiCCDS4267.1 [Q08174-2]
CCDS43375.1 [Q08174-1]
RefSeqiNP_001265542.1, NM_001278613.1
NP_001265544.1, NM_001278615.1
NP_002578.2, NM_002587.4 [Q08174-1]
NP_115796.2, NM_032420.3 [Q08174-2]

3D structure databases

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Protein Data Bank Europe

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PDBei

Protein Data Bank RCSB

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RCSB PDBi

Protein Data Bank Japan

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PDBji
Links Updated
PDB entryMethodResolution (Å)ChainPositionsPDBsum
6BX7X-ray2.85A58-503[»]
6MGAX-ray3.15A58-503[»]
6PIMX-ray3.05A271-503[»]
6VFPX-ray3.20A58-498[»]
SMRiQ08174
ModBaseiSearch...
PDBe-KBiSearch...

Protein-protein interaction databases

BioGRIDi111130, 15 interactors
IntActiQ08174, 12 interactors
MINTiQ08174
STRINGi9606.ENSP00000287008

PTM databases

iPTMnetiQ08174
PhosphoSitePlusiQ08174

Polymorphism and mutation databases

BioMutaiPCDH1
DMDMi215273864

Proteomic databases

CPTACiCPTAC-1310
EPDiQ08174
jPOSTiQ08174
MassIVEiQ08174
MaxQBiQ08174
PaxDbiQ08174
PeptideAtlasiQ08174
PRIDEiQ08174
ProteomicsDBi58575 [Q08174-1]
58576 [Q08174-2]

Protocols and materials databases

Antibodypedia a portal for validated antibodies

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Antibodypediai
27376 308 antibodies

The DNASU plasmid repository

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DNASUi
5097

Genome annotation databases

EnsembliENST00000287008; ENSP00000287008; ENSG00000156453 [Q08174-2]
ENST00000394536; ENSP00000378043; ENSG00000156453 [Q08174-1]
GeneIDi5097
KEGGihsa:5097
UCSCiuc003llp.4 human [Q08174-1]

Organism-specific databases

Comparative Toxicogenomics Database

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CTDi
5097
DisGeNETi5097
EuPathDBiHostDB:ENSG00000156453.13

GeneCards: human genes, protein and diseases

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GeneCardsi
PCDH1
HGNCiHGNC:8655 PCDH1
HPAiENSG00000156453 Low tissue specificity
MIMi603626 gene
neXtProtiNX_Q08174
OpenTargetsiENSG00000156453
PharmGKBiPA32994

GenAtlas: human gene database

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GenAtlasi
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Phylogenomic databases

eggNOGiENOG410II7Q Eukaryota
ENOG410XPHP LUCA
GeneTreeiENSGT00940000155521
HOGENOMiCLU_006480_5_3_1
InParanoidiQ08174
KOiK16498
OMAiNASYKHI
OrthoDBi97260at2759
PhylomeDBiQ08174
TreeFamiTF320624

Miscellaneous databases

BioGRID ORCS database of CRISPR phenotype screens

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BioGRID-ORCSi
5097 55 hits in 787 CRISPR screens

ChiTaRS: a database of human, mouse and fruit fly chimeric transcripts and RNA-sequencing data

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ChiTaRSi
PCDH1 human

The Gene Wiki collection of pages on human genes and proteins

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GeneWikii
PCDH1

Database of phenotypes from RNA interference screens in Drosophila and Homo sapiens

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GenomeRNAii
5097
PharosiQ08174 Tbio

Protein Ontology

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PROi
PR:Q08174
RNActiQ08174 protein

The Stanford Online Universal Resource for Clones and ESTs

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SOURCEi
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Gene expression databases

BgeeiENSG00000156453 Expressed in lower esophagus mucosa and 213 other tissues
ExpressionAtlasiQ08174 baseline and differential
GenevisibleiQ08174 HS

Family and domain databases

InterProiView protein in InterPro
IPR002126 Cadherin-like_dom
IPR015919 Cadherin-like_sf
IPR020894 Cadherin_CS
IPR013164 Cadherin_N
IPR013585 Protocadherin
PfamiView protein in Pfam
PF00028 Cadherin, 6 hits
PF08266 Cadherin_2, 1 hit
PF08374 Protocadherin, 1 hit
PRINTSiPR00205 CADHERIN
SMARTiView protein in SMART
SM00112 CA, 6 hits
SUPFAMiSSF49313 SSF49313, 6 hits
PROSITEiView protein in PROSITE
PS00232 CADHERIN_1, 6 hits
PS50268 CADHERIN_2, 7 hits

ProtoNet; Automatic hierarchical classification of proteins

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ProtoNeti
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MobiDB: a database of protein disorder and mobility annotations

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MobiDBi
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<p>This section provides general information on the entry.<p><a href='/help/entry_information_section' target='_top'>More...</a></p>Entry informationi

<p>This subsection of the 'Entry information' section provides a mnemonic identifier for a UniProtKB entry, but it is not a stable identifier. Each reviewed entry is assigned a unique entry name upon integration into UniProtKB/Swiss-Prot.<p><a href='/help/entry_name' target='_top'>More...</a></p>Entry nameiPCDH1_HUMAN
<p>This subsection of the 'Entry information' section provides one or more accession number(s). These are stable identifiers and should be used to cite UniProtKB entries. Upon integration into UniProtKB, each entry is assigned a unique accession number, which is called 'Primary (citable) accession number'.<p><a href='/help/accession_numbers' target='_top'>More...</a></p>AccessioniPrimary (citable) accession number: Q08174
Secondary accession number(s): Q8IUP2
<p>This subsection of the 'Entry information' section shows the date of integration of the entry into UniProtKB, the date of the last sequence update and the date of the last annotation modification ('Last modified'). The version number for both the entry and the <a href="http://www.uniprot.org/help/canonical%5Fand%5Fisoforms">canonical sequence</a> are also displayed.<p><a href='/help/entry_history' target='_top'>More...</a></p>Entry historyiIntegrated into UniProtKB/Swiss-Prot: October 19, 2002
Last sequence update: November 25, 2008
Last modified: June 17, 2020
This is version 171 of the entry and version 2 of the sequence. See complete history.
<p>This subsection of the 'Entry information' section indicates whether the entry has been manually annotated and reviewed by UniProtKB curators or not, in other words, if the entry belongs to the Swiss-Prot section of UniProtKB (<strong>reviewed</strong>) or to the computer-annotated TrEMBL section (<strong>unreviewed</strong>).<p><a href='/help/entry_status' target='_top'>More...</a></p>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.

<p>This section contains any relevant information that doesn't fit in any other defined sections<p><a href='/help/miscellaneous_section' target='_top'>More...</a></p>Miscellaneousi

Keywords - Technical termi

3D-structure, Reference proteome

Documents

  1. PDB cross-references
    Index of Protein Data Bank (PDB) cross-references
  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. Human chromosome 5
    Human chromosome 5: entries, gene names and cross-references to MIM
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