Q02242 (PDCD1_MOUSE) Reviewed, UniProtKB/Swiss-Prot

Names and origin

Protein names

Recommended name:
Programmed cell death protein 1
Short name=Protein PD-1
Short name=mPD-1

Alternative name(s):
CD_antigen=CD279

Gene names

Name:	Pdcd1
Synonyms:	Pd1

Organism

Mus musculus (Mouse) [Reference proteome]

Taxonomic identifier

10090 [NCBI]

Taxonomic lineage

cellular organisms › Eukaryota › Opisthokonta › Metazoa › Eumetazoa › Bilateria › Deuterostomia › Chordata › Craniata › Vertebrata › Gnathostomata › Teleostomi › Euteleostomi › Sarcopterygii › Tetrapoda › Amniota › Mammalia › Theria › Eutheria › Euarchontoglires › Glires › Rodentia › Sciurognathi › Muroidea › Muridae › Murinae › Mus › Mus

Protein attributes

Sequence length	288 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	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.
Subunit structure	Monomer. Ref.2
Subcellular location	Membrane; Single-pass type I membrane protein.
Tissue specificity	Thymus.
Developmental stage	Induced at programmed cell death.
Sequence similarities	Contains 1 Ig-like V-type (immunoglobulin-like) domain.

Ontologies

Keywords
Biological process	Apoptosis Immunity
Cellular component	Membrane
Domain	Immunoglobulin domain Signal Transmembrane Transmembrane helix
PTM	Disulfide bond Glycoprotein
Technical term	3D-structure Complete proteome Reference proteome
Gene Ontology (GO)
Biological_process	apoptotic process Inferred from electronic annotation. Source: UniProtKB-KW
Cellular_component	external side of plasma membrane Inferred from direct assay PubMed 15568026. Source: MGI integral to membrane Inferred from electronic annotation. Source: UniProtKB-KW
Complete GO annotation...

Sequence annotation (Features)

Feature key

Position(s)

Length

Description

Graphical view

Feature identifier

Molecule processing

Signal peptide

1 – 20

20

Potential

Chain

21 – 288

268

Programmed cell death protein 1

PRO_0000014893

Regions

Topological domain

21 – 169

149

Extracellular Potential

Transmembrane

170 – 190

21

Helical; Potential

Topological domain

191 – 288

98

Cytoplasmic Potential

Domain

31 – 139

109

Ig-like V-type

Amino acid modifications

Glycosylation

49

1

N-linked (GlcNAc...) Potential

Glycosylation

58

1

N-linked (GlcNAc...) Potential

Glycosylation

74

1

N-linked (GlcNAc...) Potential

Glycosylation

116

1

N-linked (GlcNAc...) Potential

Disulfide bond

54 ↔ 123

Ref.2 Ref.3 Ref.4

Secondary structure

1

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288

Helix Strand Turn

Details...

Beta strand

35 – 38

4

Beta strand

40 – 45

6

Beta strand

50 – 58

9

Beta strand

64 – 70

7

Beta strand

76 – 83

8

Beta strand

86 – 91

6

Beta strand

95 – 99

5

Beta strand

103 – 112

10

Helix

115 – 117

3

Beta strand

119 – 127

9

Beta strand

129 – 131

3

Beta strand

133 – 136

4

Beta strand

140 – 145

6

Sequences

	Sequence		Length	Mass (Da)
	Q02242 [UniParc]. Last modified July 1, 1993. Version 1. Checksum: 4AD3C5F0F9D4200A	FASTA	288	31,842
	10 20 30 40 50 60 MWVRQVPWSF TWAVLQLSWQ SGWLLEVPNG PWRSLTFYPA WLTVSEGANA TFTCSLSNWS 70 80 90 100 110 120 EDLMLNWNRL SPSNQTEKQA AFCNGLSQPV QDARFQIIQL PNRHDFHMNI LDTRRNDSGI 130 140 150 160 170 180 YLCGAISLHP KAKIEESPGA ELVVTERILE TSTRYPSPSP KPEGRFQGMV IGIMSALVGI 190 200 210 220 230 240 PVLLLLAWAL AVFCSTSMSE ARGAGSKDDT LKEEPSAAPV PSVAYEELDF QGREKTPELP 250 260 270 280 TACVHTEYAT IVFTEGLGAS AMGRRGSADG LQGPRPPRHE DGHCSWPL

References

[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.
+	Additional computationally mapped references.

Cross-references

Sequence databases

EMBL
GenBank
DDBJ

X67914 mRNA. Translation: CAA48113.1.

IPI

IPI00125890.

PIR

S28029.

RefSeq

NP_032824.1. NM_008798.2.

UniGene

Mm.5024.

3D structure databases

PDBe
RCSB PDB
PDBj

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	[»]

ProteinModelPortal

Q02242.

SMR

Q02242. Positions 34-149.

ModBase

Search...

Protein-protein interaction databases

DIP

DIP-29730N.

IntAct

Q02242. 1 interaction.

STRING

10090.ENSMUSP00000027507.

PTM databases

PhosphoSite

Q02242.

Proteomic databases

PRIDE

Q02242.

Protocols and materials databases

StructuralBiologyKnowledgebase

Search...

Genome annotation databases

Ensembl

ENSMUST00000027507; ENSMUSP00000027507; ENSMUSG00000026285.

GeneID

18566.

KEGG

mmu:18566.

Organism-specific databases

CTD

5133.

MGI

MGI:104879. Pdcd1.

Phylogenomic databases

eggNOG

NOG46047.

HOGENOM

HOG000253959.

HOVERGEN

HBG053534.

InParanoid

Q02242.

KO

K06744.

OMA

DFQWREK.

OrthoDB

EOG4Z8XX4.

Gene expression databases

ArrayExpress

Q02242.

Bgee

Q02242.

CleanEx

MM_PDCD1.

Genevestigator

Q02242.

GermOnline

ENSMUSG00000026285. Mus musculus.

Family and domain databases

Gene3D

2.60.40.10. 1 hit.

InterPro

IPR007110. Ig-like_dom.
IPR013783. Ig-like_fold.
IPR003599. Ig_sub.
IPR013106. Ig_V-set.
[Graphical view]

Pfam

PF07686. V-set. 1 hit.
[Graphical view]

SMART

SM00409. IG. 1 hit.
[Graphical view]

PROSITE

PS50835. IG_LIKE. 1 hit.
[Graphical view]

ProtoNet

Search...

Other

EvolutionaryTrace

Q02242.

NextBio

294392.

SOURCE

Search...

Entry information

Entry name

PDCD1_MOUSE

Accession

Primary (citable) accession number: Q02242

Entry history

Integrated into UniProtKB/Swiss-Prot:	July 1, 1993
Last sequence update:	July 1, 1993
Last modified:	April 3, 2013
This is version 110 of the entry and version 1 of the sequence. [Complete history]

Entry status

Reviewed (UniProtKB/Swiss-Prot)

Annotation program

Chordata Protein Annotation Program