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Entry version 68 (12 Aug 2020)
Sequence version 1 (27 Jul 2011)
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Protein
Submitted name:

Protocadherin 1

Gene

Pcdh1

Organism
Mus musculus (Mouse)
Status
Unreviewed-Annotation score:

Annotation score:2 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

<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

LigandCalciumARBA annotation

<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
Submitted name:
Protocadherin 1Imported
<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:Pcdh1Imported
<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>OrganismiMus musculus (Mouse)Imported
<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 identifieri10090 [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 lineageiEukaryotaMetazoaChordataCraniataVertebrataEuteleostomiMammaliaEutheriaEuarchontogliresGliresRodentiaMyomorphaMuroideaMuridaeMurinaeMusMus
<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
  • UP000000589 <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 18

Organism-specific databases

Mouse genome database (MGD) from Mouse Genome Informatics (MGI)

More...
MGIi
MGI:104692, Pcdh1

<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 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>Transmembranei692 – 713HelicalSequence analysisAdd BLAST22

Keywords - Cellular componenti

Membrane

<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

Proteomic databases

jPOST - Japan Proteome Standard Repository/Database

More...
jPOSTi
F7BJK1

MaxQB - The MaxQuant DataBase

More...
MaxQBi
F7BJK1

PeptideAtlas

More...
PeptideAtlasi
F7BJK1

PRoteomics IDEntifications database

More...
PRIDEi
F7BJK1

PTM databases

GlyConnect protein glycosylation platform

More...
GlyConnecti
2647, 2 N-Linked glycans (1 site)

<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

Gene expression databases

Bgee dataBase for Gene Expression Evolution

More...
Bgeei
ENSMUSG00000051375, Expressed in dentate gyrus of hippocampal formation granule cell and 198 other tissues

ExpressionAtlas, Differential and Baseline Expression

More...
ExpressionAtlasi
F7BJK1, baseline and differential

<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

Miscellaneous databases

RNAct, Protein-RNA interaction predictions for model organisms.

More...
RNActi
F7BJK1, 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

3D structure databases

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

More...
SMRi
F7BJK1

Database of comparative protein structure models

More...
ModBasei
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>Domaini29 – 117CAInterPro annotationAdd BLAST89
Domaini141 – 224CAInterPro annotationAdd BLAST84
Domaini256 – 343CAInterPro annotationAdd BLAST88
Domaini367 – 449CAInterPro annotationAdd BLAST83
Domaini473 – 552CAInterPro annotationAdd BLAST80
Domaini578 – 659CAInterPro annotationAdd BLAST82

Region

Feature keyPosition(s)DescriptionActionsGraphical viewLength
<p>This subsection of the 'Family and Domains' section describes a region of interest that cannot be described in other subsections.<p><a href='/help/region' target='_top'>More...</a></p>Regioni732 – 951DisorderedSequence analysisAdd BLAST220
Regioni996 – 1077DisorderedSequence analysisAdd BLAST82

Compositional bias

Feature keyPosition(s)DescriptionActionsGraphical viewLength
<p>This subsection of the 'Family and Domains' section describes the position of regions of compositional bias within the protein and the particular amino acids that are over-represented within those regions.<p><a href='/help/compbias' target='_top'>More...</a></p>Compositional biasi758 – 773PolyampholyteSequence analysisAdd BLAST16
Compositional biasi811 – 830PolarSequence analysisAdd BLAST20
Compositional biasi841 – 867PolarSequence analysisAdd BLAST27
Compositional biasi876 – 916PolarSequence analysisAdd BLAST41
Compositional biasi923 – 948PolyampholyteSequence analysisAdd BLAST26
Compositional biasi1047 – 1068PolarSequence analysisAdd BLAST22

Keywords - Domaini

RepeatARBA annotation, Transmembrane, Transmembrane helixSequence analysis

Phylogenomic databases

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
F7BJK1

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
IPR013585, Protocadherin

Pfam protein domain database

More...
Pfami
View protein in Pfam
PF00028, Cadherin, 6 hits
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, 4 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>Sequence (1+)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: Fragment.

This entry has 1 described isoform and 4 potential isoforms that are computationally mapped.Show allAlign All

F7BJK1-1 [UniParc]FASTAAdd to basket
« Hide
        10         20         30         40         50
NDNTPNFASP VITLAIPENT NIGSLFPIPL ATDRDAGPNG VASYELQAGP
60 70 80 90 100
EAQELFGLQV AEDQEEKQPQ LIVMGNLDRE RWDSYDLTIK VQDGGNPPRA
110 120 130 140 150
SSALLRVTVL DTNDNAPKFE RPTYEAELSE NSPIGHSVIQ VKANDSDQGA
160 170 180 190 200
NAEIDYTFHQ APEVVRRLLR LDRNTGLITV QGPVDREDLS TLRFSVLAKD
210 220 230 240 250
RGATPKSARA QVVVTVKDMN DNAPTIEIRG IGLVTHQDGM ANISEDVAEE
260 270 280 290 300
TAVALVQVSD RDEGENAAVT CVVAGDVPFQ LRQASETGSD SKKKYFLQTT
310 320 330 340 350
TPLDYEKVKD YTIEIVAVDS GNPPLSSTNS LKVQVVDVND NAPVFTQSIT
360 370 380 390 400
EVAFPENNKP GEVVAEVTAS DADSGSNAEL VYSLEPEPAA QGLFTISPEN
410 420 430 440 450
GEIRVKTSLD REQRDSYELK VVAADRGSPS LQGTATVLVN VLDCNDNDPK
460 470 480 490 500
FMLSGYNFSV MENMPALSPV GMVTVIDGDK GENARVQLSV EQDNGDFVIQ
510 520 530 540 550
NGTGTILSSL SFDREQQSTY TFQLKAVDGG VPPRSAYVGV TINVLDENDN
560 570 580 590 600
APFITAPSNT SHRLLTPQTR LGETVSQVTA EDIDSGINAE LTYSIAGGNP
610 620 630 640 650
YGLFQIGSHS GAITLEKEIE RRHHGLHRLV VKVSDRGKPP RYGTALVHLY
660 670 680 690 700
VNETLANRTL LETLLVHSLD TPLDIDIAGD PEYERSKQRG NILFGVVAGV
710 720 730 740 750
VAVALLIALA VLVRYCRQRE AKSGYQAGKK ETKDLYAPKP SGKAAKGSKS
760 770 780 790 800
KGKKSKSPKP VKPVEDEDDT GLQKSLKFNL MSDAPGDSPR IHLPLNYPPG
810 820 830 840 850
SPDLGRHYRS NSPLPSIQLQ PQSPSASKKH QVVQDLPPAN TFVGTGDTTS
860 870 880 890 900
TGSEQYSDYS YRTNPPKYPS KQLPHRRVTF SATSQAQELQ DPSQHSYYDS
910 920 930 940 950
GLEESETPSS KSSSGPRLGP LALPEDHYER TTPDGSIGEM EHPENDLRPL
960 970 980 990 1000
PDVAMTGTCT RECSEFGHSD TCWMPGQSSP SRRTKSSALK LSTFVPYQDR
1010 1020 1030 1040 1050
GGQEPAGAGS PSPPEDRNTK TAPVRLLPSY SAFSHSSHDS CKDSATLEEI
1060 1070
PLTQTSDFPP TATPASAQTA AKREIYL
Length:1,077
Mass (Da):116,519
Last modified:July 27, 2011 - v1
<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:i04D0E4A28E2C3DB2
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
Q8CFX3Q8CFX3_MOUSE
Protocadherin 1
Pcdh1
1,038Annotation score:

Annotation score:3 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>
E0CXD4E0CXD4_MOUSE
Protocadherin 1
Pcdh1
360Annotation score:

Annotation score:3 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>
A0A0A6YX79A0A0A6YX79_MOUSE
Protocadherin 1
Pcdh1
45Annotation score:

Annotation score:2 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>
A0A0A6YY88A0A0A6YY88_MOUSE
Protocadherin 1
Pcdh1
60Annotation score:

Annotation score:2 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 Info

Feature keyPosition(s)DescriptionActionsGraphical viewLength
<p>This subsection of the 'Sequence' section is used for sequence fragments to indicate that the residue at the extremity of the sequence is not the actual terminal residue in the complete protein sequence.<p><a href='/help/non_ter' target='_top'>More...</a></p>Non-terminal residuei1Imported1

Sequence databases

Select the link destinations:

EMBL nucleotide sequence database

More...
EMBLi

GenBank nucleotide sequence database

More...
GenBanki

DNA Data Bank of Japan; a nucleotide sequence database

More...
DDBJi
Links Updated
AC133646 Genomic DNA No translation available.

Genome annotation databases

Ensembl eukaryotic genome annotation project

More...
Ensembli
ENSMUST00000161701; ENSMUSP00000125576; ENSMUSG00000051375

<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
AC133646 Genomic DNA No translation available.

3D structure databases

SMRiF7BJK1
ModBaseiSearch...

PTM databases

GlyConnecti2647, 2 N-Linked glycans (1 site)

Proteomic databases

jPOSTiF7BJK1
MaxQBiF7BJK1
PeptideAtlasiF7BJK1
PRIDEiF7BJK1

Protocols and materials databases

Antibodypedia a portal for validated antibodies

More...
Antibodypediai
27376, 310 antibodies

Genome annotation databases

EnsembliENSMUST00000161701; ENSMUSP00000125576; ENSMUSG00000051375

Organism-specific databases

MGIiMGI:104692, Pcdh1

Phylogenomic databases

GeneTreeiENSGT00940000155521
HOGENOMiCLU_006480_5_3_1
InParanoidiF7BJK1

Miscellaneous databases

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

More...
ChiTaRSi
Pcdh1, mouse
RNActiF7BJK1, protein

The Stanford Online Universal Resource for Clones and ESTs

More...
SOURCEi
Search...

Gene expression databases

BgeeiENSMUSG00000051375, Expressed in dentate gyrus of hippocampal formation granule cell and 198 other tissues
ExpressionAtlasiF7BJK1, baseline and differential

Family and domain databases

InterProiView protein in InterPro
IPR002126, Cadherin-like_dom
IPR015919, Cadherin-like_sf
IPR020894, Cadherin_CS
IPR013585, Protocadherin
PfamiView protein in Pfam
PF00028, Cadherin, 6 hits
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, 4 hits

ProtoNet; Automatic hierarchical classification of proteins

More...
ProtoNeti
Search...

MobiDB: a database of protein disorder and mobility annotations

More...
MobiDBi
Search...

<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 nameiF7BJK1_MOUSE
<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: F7BJK1
<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/TrEMBL: July 27, 2011
Last sequence update: July 27, 2011
Last modified: August 12, 2020
This is version 68 of the entry and version 1 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 statusiUnreviewed (UniProtKB/TrEMBL)

<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

Proteomics identificationCombined sources, Reference proteomeImported
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