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Q02242

- PDCD1_MOUSE

UniProt

Q02242 - PDCD1_MOUSE

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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

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 - Biological processi

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

Keywords - Biological processi

Apoptosis, Immunity

Enzyme and pathway databases

ReactomeiREACT_263643. PD-1 signaling.

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

Topology

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Topological domaini21 – 169149ExtracellularSequence AnalysisAdd
BLAST
Transmembranei170 – 19021HelicalSequence AnalysisAdd
BLAST
Topological domaini191 – 28898CytoplasmicSequence AnalysisAdd
BLAST

GO - Cellular componenti

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

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

BgeeiQ02242.
CleanExiMM_PDCD1.
ExpressionAtlasiQ02242. baseline and differential.
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 – 384Combined sources
Beta strandi40 – 456Combined sources
Beta strandi50 – 589Combined sources
Beta strandi64 – 707Combined sources
Beta strandi76 – 838Combined sources
Beta strandi86 – 916Combined sources
Beta strandi95 – 995Combined sources
Beta strandi103 – 11210Combined sources
Helixi115 – 1173Combined sources
Beta strandi119 – 1279Combined sources
Beta strandi129 – 1313Combined sources
Beta strandi133 – 1364Combined sources
Beta strandi140 – 1456Combined sources

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
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.

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

        10         20         30         40         50
MWVRQVPWSF TWAVLQLSWQ SGWLLEVPNG PWRSLTFYPA WLTVSEGANA
60 70 80 90 100
TFTCSLSNWS EDLMLNWNRL SPSNQTEKQA AFCNGLSQPV QDARFQIIQL
110 120 130 140 150
PNRHDFHMNI LDTRRNDSGI YLCGAISLHP KAKIEESPGA ELVVTERILE
160 170 180 190 200
TSTRYPSPSP KPEGRFQGMV IGIMSALVGI PVLLLLAWAL AVFCSTSMSE
210 220 230 240 250
ARGAGSKDDT LKEEPSAAPV PSVAYEELDF QGREKTPELP TACVHTEYAT
260 270 280
IVFTEGLGAS AMGRRGSADG LQGPRPPRHE DGHCSWPL
Length:288
Mass (Da):31,842
Last modified:July 1, 1993 - v1
Checksum:i4AD3C5F0F9D4200A
GO

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
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:
EMBLi
GenBanki
DDBJi
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:
PDBei
RCSB PDBi
PDBji
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.

Enzyme and pathway databases

Reactomei REACT_263643. PD-1 signaling.

Miscellaneous databases

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

Gene expression databases

Bgeei Q02242.
CleanExi MM_PDCD1.
ExpressionAtlasi Q02242. baseline and differential.
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: November 26, 2014
This is version 122 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