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Q02242

- PDCD1_MOUSE

UniProt

Q02242 - PDCD1_MOUSE

Protein

Programmed cell death protein 1

Gene

Pdcd1

Organism
Mus musculus (Mouse)
Status
Reviewed - Annotation score: 4 out of 5- Experimental evidence at protein leveli
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    • History
      Entry version 120 (01 Oct 2014)
      Sequence version 1 (01 Jul 1993)
      Previous versions | rss
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    Functioni

    Inhibitory cell surface receptor involved in the regulation of T-cell function during immunity and tolerance. Upon ligand binding, inhibits T-cell effector functions in an antigen-specific manner. Possible cell death inducer, in association with other factors By similarity.By similarity

    GO - Molecular functioni

    1. protein binding Source: MGI

    GO - Biological processi

    1. apoptotic process Source: UniProtKB-KW
    2. immune system process Source: UniProtKB-KW

    Keywords - Biological processi

    Apoptosis, Immunity

    Names & Taxonomyi

    Protein namesi
    Recommended name:
    Programmed cell death protein 1
    Short name:
    Protein PD-1
    Short name:
    mPD-1
    Alternative name(s):
    CD_antigen: CD279
    Gene namesi
    Name:Pdcd1
    Synonyms:Pd1
    OrganismiMus musculus (Mouse)
    Taxonomic identifieri10090 [NCBI]
    Taxonomic lineageiEukaryotaMetazoaChordataCraniataVertebrataEuteleostomiMammaliaEutheriaEuarchontogliresGliresRodentiaSciurognathiMuroideaMuridaeMurinaeMusMus
    ProteomesiUP000000589: Chromosome 1

    Organism-specific databases

    MGIiMGI:104879. Pdcd1.

    Subcellular locationi

    GO - Cellular componenti

    1. external side of plasma membrane Source: MGI
    2. integral component of membrane Source: UniProtKB-KW

    Keywords - Cellular componenti

    Membrane

    PTM / Processingi

    Molecule processing

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Signal peptidei1 – 2020Sequence AnalysisAdd
    BLAST
    Chaini21 – 288268Programmed cell death protein 1PRO_0000014893Add
    BLAST

    Amino acid modifications

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Glycosylationi49 – 491N-linked (GlcNAc...)Sequence Analysis
    Disulfide bondi54 ↔ 1233 PublicationsPROSITE-ProRule annotation
    Glycosylationi58 – 581N-linked (GlcNAc...)Sequence Analysis
    Glycosylationi74 – 741N-linked (GlcNAc...)Sequence Analysis
    Glycosylationi116 – 1161N-linked (GlcNAc...)Sequence Analysis

    Keywords - PTMi

    Disulfide bond, Glycoprotein

    Proteomic databases

    PRIDEiQ02242.

    PTM databases

    PhosphoSiteiQ02242.

    Expressioni

    Tissue specificityi

    Thymus.

    Developmental stagei

    Induced at programmed cell death.

    Gene expression databases

    ArrayExpressiQ02242.
    BgeeiQ02242.
    CleanExiMM_PDCD1.
    GenevestigatoriQ02242.

    Interactioni

    Subunit structurei

    Monomer.3 Publications

    Protein-protein interaction databases

    DIPiDIP-29730N.
    IntActiQ02242. 1 interaction.
    STRINGi10090.ENSMUSP00000027507.

    Structurei

    Secondary structure

    1
    288
    Legend: HelixTurnBeta strand
    Show more details
    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Beta strandi35 – 384
    Beta strandi40 – 456
    Beta strandi50 – 589
    Beta strandi64 – 707
    Beta strandi76 – 838
    Beta strandi86 – 916
    Beta strandi95 – 995
    Beta strandi103 – 11210
    Helixi115 – 1173
    Beta strandi119 – 1279
    Beta strandi129 – 1313
    Beta strandi133 – 1364
    Beta strandi140 – 1456

    3D structure databases

    Select the link destinations:
    PDBe
    RCSB PDB
    PDBj
    Links Updated
    EntryMethodResolution (Å)ChainPositionsPDBsum
    1NPUX-ray2.00A34-150[»]
    3BIKX-ray2.65B/C25-157[»]
    3BP5X-ray1.80A34-150[»]
    3BP6X-ray1.60A34-150[»]
    3RNKX-ray1.74A34-150[»]
    3RNQX-ray1.60A34-150[»]
    3SBWX-ray2.28A/B34-150[»]
    ProteinModelPortaliQ02242.
    SMRiQ02242. Positions 34-149.
    ModBaseiSearch...
    MobiDBiSearch...

    Miscellaneous databases

    EvolutionaryTraceiQ02242.

    Topological domain

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Topological domaini21 – 169149ExtracellularSequence AnalysisAdd
    BLAST
    Topological domaini191 – 28898CytoplasmicSequence AnalysisAdd
    BLAST

    Transmembrane

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Transmembranei170 – 19021HelicalSequence AnalysisAdd
    BLAST

    Family & Domainsi

    Domains and Repeats

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Domaini31 – 139109Ig-like V-typeAdd
    BLAST

    Sequence similaritiesi

    Keywords - Domaini

    Immunoglobulin domain, Signal, Transmembrane, Transmembrane helix

    Phylogenomic databases

    eggNOGiNOG46047.
    HOGENOMiHOG000253959.
    HOVERGENiHBG053534.
    InParanoidiQ02242.
    KOiK06744.
    OMAiDFQWREK.
    OrthoDBiEOG7966J2.
    PhylomeDBiQ02242.
    TreeFamiTF336181.

    Family and domain databases

    Gene3Di2.60.40.10. 1 hit.
    InterProiIPR007110. Ig-like_dom.
    IPR013783. Ig-like_fold.
    IPR003599. Ig_sub.
    IPR013106. Ig_V-set.
    [Graphical view]
    PfamiPF07686. V-set. 1 hit.
    [Graphical view]
    SMARTiSM00409. IG. 1 hit.
    [Graphical view]
    PROSITEiPS50835. IG_LIKE. 1 hit.
    [Graphical view]

    Sequencei

    Sequence statusi: Complete.

    Sequence processingi: The displayed sequence is further processed into a mature form.

    Q02242-1 [UniParc]FASTAAdd to Basket

    « Hide

    MWVRQVPWSF TWAVLQLSWQ SGWLLEVPNG PWRSLTFYPA WLTVSEGANA    50
    TFTCSLSNWS EDLMLNWNRL SPSNQTEKQA AFCNGLSQPV QDARFQIIQL 100
    PNRHDFHMNI LDTRRNDSGI YLCGAISLHP KAKIEESPGA ELVVTERILE 150
    TSTRYPSPSP KPEGRFQGMV IGIMSALVGI PVLLLLAWAL AVFCSTSMSE 200
    ARGAGSKDDT LKEEPSAAPV PSVAYEELDF QGREKTPELP TACVHTEYAT 250
    IVFTEGLGAS AMGRRGSADG LQGPRPPRHE DGHCSWPL 288
    Length:288
    Mass (Da):31,842
    Last modified:July 1, 1993 - v1
    Checksum:i4AD3C5F0F9D4200A
    GO

    Sequence databases

    Select the link destinations:
    EMBL
    GenBank
    DDBJ
    Links Updated
    X67914 mRNA. Translation: CAA48113.1.
    CCDSiCCDS15200.1.
    PIRiS28029.
    RefSeqiNP_032824.1. NM_008798.2.
    UniGeneiMm.5024.

    Genome annotation databases

    EnsembliENSMUST00000027507; ENSMUSP00000027507; ENSMUSG00000026285.
    GeneIDi18566.
    KEGGimmu:18566.
    UCSCiuc007cev.1. mouse.

    Cross-referencesi

    Sequence databases

    Select the link destinations:
    EMBL
    GenBank
    DDBJ
    Links Updated
    X67914 mRNA. Translation: CAA48113.1 .
    CCDSi CCDS15200.1.
    PIRi S28029.
    RefSeqi NP_032824.1. NM_008798.2.
    UniGenei Mm.5024.

    3D structure databases

    Select the link destinations:
    PDBe
    RCSB PDB
    PDBj
    Links Updated
    Entry Method Resolution (Å) Chain Positions PDBsum
    1NPU X-ray 2.00 A 34-150 [» ]
    3BIK X-ray 2.65 B/C 25-157 [» ]
    3BP5 X-ray 1.80 A 34-150 [» ]
    3BP6 X-ray 1.60 A 34-150 [» ]
    3RNK X-ray 1.74 A 34-150 [» ]
    3RNQ X-ray 1.60 A 34-150 [» ]
    3SBW X-ray 2.28 A/B 34-150 [» ]
    ProteinModelPortali Q02242.
    SMRi Q02242. Positions 34-149.
    ModBasei Search...
    MobiDBi Search...

    Protein-protein interaction databases

    DIPi DIP-29730N.
    IntActi Q02242. 1 interaction.
    STRINGi 10090.ENSMUSP00000027507.

    PTM databases

    PhosphoSitei Q02242.

    Proteomic databases

    PRIDEi Q02242.

    Protocols and materials databases

    Structural Biology Knowledgebase Search...

    Genome annotation databases

    Ensembli ENSMUST00000027507 ; ENSMUSP00000027507 ; ENSMUSG00000026285 .
    GeneIDi 18566.
    KEGGi mmu:18566.
    UCSCi uc007cev.1. mouse.

    Organism-specific databases

    CTDi 5133.
    MGIi MGI:104879. Pdcd1.

    Phylogenomic databases

    eggNOGi NOG46047.
    HOGENOMi HOG000253959.
    HOVERGENi HBG053534.
    InParanoidi Q02242.
    KOi K06744.
    OMAi DFQWREK.
    OrthoDBi EOG7966J2.
    PhylomeDBi Q02242.
    TreeFami TF336181.

    Miscellaneous databases

    EvolutionaryTracei Q02242.
    NextBioi 294392.
    PROi Q02242.
    SOURCEi Search...

    Gene expression databases

    ArrayExpressi Q02242.
    Bgeei Q02242.
    CleanExi MM_PDCD1.
    Genevestigatori Q02242.

    Family and domain databases

    Gene3Di 2.60.40.10. 1 hit.
    InterProi IPR007110. Ig-like_dom.
    IPR013783. Ig-like_fold.
    IPR003599. Ig_sub.
    IPR013106. Ig_V-set.
    [Graphical view ]
    Pfami PF07686. V-set. 1 hit.
    [Graphical view ]
    SMARTi SM00409. IG. 1 hit.
    [Graphical view ]
    PROSITEi PS50835. IG_LIKE. 1 hit.
    [Graphical view ]
    ProtoNeti Search...

    Publicationsi

    1. "Induced expression of PD-1, a novel member of the immunoglobulin gene superfamily, upon programmed cell death."
      Ishida Y., Agata Y., Shibahara K., Honjo T.
      EMBO J. 11:3887-3895(1992) [PubMed] [Europe PMC] [Abstract]
      Cited for: NUCLEOTIDE SEQUENCE [MRNA].
    2. "Structural and functional analysis of the costimulatory receptor programmed death-1."
      Zhang X., Schwartz J.C., Guo X., Bhatia S., Cao E., Lorenz M., Cammer M., Chen L., Zhang Z.-Y., Edidin M.A., Nathenson S.G., Almo S.C.
      Immunity 20:337-347(2004) [PubMed] [Europe PMC] [Abstract]
      Cited for: X-RAY CRYSTALLOGRAPHY (2.0 ANGSTROMS) OF 34-150, SUBUNIT, DISULFIDE BOND.
    3. "The PD-1/PD-L1 complex resembles the antigen-binding Fv domains of antibodies and T cell receptors."
      Lin D.Y., Tanaka Y., Iwasaki M., Gittis A.G., Su H.P., Mikami B., Okazaki T., Honjo T., Minato N., Garboczi D.N.
      Proc. Natl. Acad. Sci. U.S.A. 105:3011-3016(2008) [PubMed] [Europe PMC] [Abstract]
      Cited for: X-RAY CRYSTALLOGRAPHY (2.65 ANGSTROMS) OF 25-157 IN COMPLEX WITH CD274, DISULFIDE BOND.
    4. "Crystal structure of the complex between programmed death-1 (PD-1) and its ligand PD-L2."
      Lazar-Molnar E., Yan Q., Cao E., Ramagopal U., Nathenson S.G., Almo S.C.
      Proc. Natl. Acad. Sci. U.S.A. 105:10483-10488(2008) [PubMed] [Europe PMC] [Abstract]
      Cited for: X-RAY CRYSTALLOGRAPHY (1.6 ANGSTROMS) OF 34-150 IN COMPLEX WITH PDCD1LG2, DISULFIDE BOND.

    Entry informationi

    Entry nameiPDCD1_MOUSE
    AccessioniPrimary (citable) accession number: Q02242
    Entry historyi
    Integrated into UniProtKB/Swiss-Prot: July 1, 1993
    Last sequence update: July 1, 1993
    Last modified: October 1, 2014
    This is version 120 of the entry and version 1 of the sequence. [Complete history]
    Entry statusiReviewed (UniProtKB/Swiss-Prot)
    Annotation programChordata Protein Annotation Program

    Miscellaneousi

    Keywords - Technical termi

    3D-structure, Complete proteome, Reference proteome

    Documents

    1. MGD cross-references
      Mouse Genome Database (MGD) cross-references in UniProtKB/Swiss-Prot
    2. PDB cross-references
      Index of Protein Data Bank (PDB) cross-references
    3. SIMILARITY comments
      Index of protein domains and families

    External Data

    Dasty 3