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Protein

T-cell surface glycoprotein CD4

Gene

Cd4

Organism
Rattus norvegicus (Rat)
Status
Reviewed-Annotation score: Annotation score: 5 out of 5-Experimental evidence at protein leveli

Functioni

Accessory protein for MHC class-II antigen/T-cell receptor interaction. May regulate T-cell activation.

GO - Molecular functioni

  • coreceptor activity Source: InterPro
  • glycoprotein binding Source: Ensembl
  • immunoglobulin binding Source: RGD
  • protein kinase binding Source: RGD
  • protein tyrosine kinase binding Source: RGD
  • zinc ion binding Source: Ensembl

GO - Biological processi

  • adaptive immune response Source: UniProtKB-KW
  • cell surface receptor signaling pathway Source: Ensembl
  • cytokine production Source: Ensembl
  • defense response to Gram-negative bacterium Source: Ensembl
  • helper T cell enhancement of adaptive immune response Source: Ensembl
  • induction by virus of host cell-cell fusion Source: Ensembl
  • maintenance of protein location in cell Source: Ensembl
  • positive regulation of calcium ion transport into cytosol Source: RGD
  • positive regulation of calcium-mediated signaling Source: Ensembl
  • positive regulation of peptidyl-tyrosine phosphorylation Source: Ensembl
  • positive regulation of protein kinase activity Source: Ensembl
  • positive regulation of T cell proliferation Source: RGD
  • response to estradiol Source: RGD
  • response to vitamin D Source: RGD
  • T cell activation Source: RGD
  • T cell differentiation Source: UniProtKB
  • T cell selection Source: UniProtKB
Complete GO annotation...

Keywords - Biological processi

Adaptive immunity, Immunity

Enzyme and pathway databases

ReactomeiR-RNO-1462054. Alpha-defensins.
R-RNO-202424. Downstream TCR signaling.
R-RNO-202427. Phosphorylation of CD3 and TCR zeta chains.
R-RNO-202430. Translocation of ZAP-70 to Immunological synapse.
R-RNO-202433. Generation of second messenger molecules.
R-RNO-389948. PD-1 signaling.
R-RNO-449147. Signaling by Interleukins.
R-RNO-8856825. Cargo recognition for clathrin-mediated endocytosis.
R-RNO-8856828. Clathrin-mediated endocytosis.

Names & Taxonomyi

Protein namesi
Recommended name:
T-cell surface glycoprotein CD4
Alternative name(s):
T-cell surface antigen T4/Leu-3
W3/25 antigen
CD_antigen: CD4
Gene namesi
Name:Cd4
OrganismiRattus norvegicus (Rat)
Taxonomic identifieri10116 [NCBI]
Taxonomic lineageiEukaryotaMetazoaChordataCraniataVertebrataEuteleostomiMammaliaEutheriaEuarchontogliresGliresRodentiaSciurognathiMuroideaMuridaeMurinaeRattus
Proteomesi
  • UP000002494 Componenti: Chromosome 4

Organism-specific databases

RGDi2306. Cd4.

Subcellular locationi

Topology

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Topological domaini28 – 394ExtracellularSequence analysisAdd BLAST367
Transmembranei395 – 417HelicalSequence analysisAdd BLAST23
Topological domaini418 – 457CytoplasmicSequence analysisAdd BLAST40

GO - Cellular componenti

  • endoplasmic reticulum lumen Source: Ensembl
  • endoplasmic reticulum membrane Source: Ensembl
  • external side of plasma membrane Source: RGD
  • integral component of membrane Source: UniProtKB-KW
  • membrane raft Source: Ensembl
  • plasma membrane Source: RGD
Complete GO annotation...

Keywords - Cellular componenti

Membrane

Pathology & Biotechi

Mutagenesis

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Mutagenesisi186N → T: No change in secretion; when associated with S-297. 1 Publication1
Mutagenesisi297N → S: No change in secretion; when associated with T-186. 1 Publication1

PTM / Processingi

Molecule processing

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Signal peptidei1 – 27Add BLAST27
ChainiPRO_000001462928 – 457T-cell surface glycoprotein CD4Add BLAST430

Amino acid modifications

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Disulfide bondi43 ↔ 111PROSITE-ProRule annotation1 Publication
Disulfide bondi158 ↔ 187PROSITE-ProRule annotation1 Publication
Glycosylationi186N-linked (GlcNAc...)1 Publication1
Glycosylationi297N-linked (GlcNAc...)1 Publication1
Disulfide bondi328 ↔ 370PROSITE-ProRule annotation1 Publication
Glycosylationi392N-linked (GlcNAc...)Sequence analysis1
Lipidationi418S-palmitoyl cysteineBy similarity1
Lipidationi421S-palmitoyl cysteineBy similarity1

Keywords - PTMi

Disulfide bond, Glycoprotein, Lipoprotein, Palmitate

Proteomic databases

PaxDbiP05540.
PRIDEiP05540.

PTM databases

UniCarbKBiP05540.

Expressioni

Gene expression databases

BgeeiENSRNOG00000016294.
GenevisibleiP05540. RN.

Interactioni

Subunit structurei

Associates with p56-LCK. Interacts with SPG21 (By similarity).By similarity

GO - Molecular functioni

  • immunoglobulin binding Source: RGD
  • protein kinase binding Source: RGD
  • protein tyrosine kinase binding Source: RGD

Protein-protein interaction databases

MINTiMINT-4996350.
STRINGi10116.ENSRNOP00000021915.

Structurei

Secondary structure

1457
Legend: HelixTurnBeta strandPDB Structure known for this area
Show more details
Feature keyPosition(s)DescriptionActionsGraphical viewLength
Beta strandi213 – 217Combined sources5
Beta strandi222 – 225Combined sources4
Beta strandi235 – 245Combined sources11
Beta strandi252 – 258Combined sources7
Beta strandi261 – 266Combined sources6
Beta strandi282 – 285Combined sources4
Helixi290 – 292Combined sources3
Beta strandi294 – 301Combined sources8
Beta strandi303 – 319Combined sources17
Beta strandi321 – 332Combined sources12
Beta strandi336 – 344Combined sources9
Beta strandi349 – 362Combined sources14
Beta strandi365 – 374Combined sources10
Beta strandi377 – 385Combined sources9

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
PDB entryMethodResolution (Å)ChainPositionsPDBsum
1CIDX-ray2.80A210-386[»]
ProteinModelPortaliP05540.
SMRiP05540.
ModBaseiSearch...
MobiDBiSearch...

Miscellaneous databases

EvolutionaryTraceiP05540.

Family & Domainsi

Domains and Repeats

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Domaini28 – 127Ig-like V-typeAdd BLAST100
Domaini128 – 206Ig-like C2-type 1Add BLAST79
Domaini207 – 316Ig-like C2-type 2Add BLAST110
Domaini317 – 374Ig-like C2-type 3Add BLAST58

Sequence similaritiesi

Keywords - Domaini

Immunoglobulin domain, Repeat, Signal, Transmembrane, Transmembrane helix

Phylogenomic databases

eggNOGiENOG410IK9F. Eukaryota.
ENOG410YWI4. LUCA.
GeneTreeiENSGT00390000001745.
HOGENOMiHOG000008696.
HOVERGENiHBG005281.
InParanoidiP05540.
KOiK06454.
OMAiPEAGMWQ.
OrthoDBiEOG091G0AZL.
PhylomeDBiP05540.
TreeFamiTF335974.

Family and domain databases

Gene3Di2.60.40.10. 4 hits.
InterProiIPR000973. CD4.
IPR015274. CD4-extracel.
IPR007110. Ig-like_dom.
IPR013783. Ig-like_fold.
IPR008424. Ig_C2-set.
IPR003599. Ig_sub.
IPR013106. Ig_V-set.
IPR013151. Immunoglobulin.
IPR021963. Tcell_CD4_Cterm.
[Graphical view]
PANTHERiPTHR11422:SF0. PTHR11422:SF0. 1 hit.
PfamiPF05790. C2-set. 2 hits.
PF09191. CD4-extracel. 1 hit.
PF00047. ig. 1 hit.
PF12104. Tcell_CD4_C. 1 hit.
[Graphical view]
PRINTSiPR00692. CD4TCANTIGEN.
SMARTiSM00409. IG. 3 hits.
SM00406. IGv. 1 hit.
[Graphical view]
SUPFAMiSSF48726. SSF48726. 3 hits.
PROSITEiPS50835. IG_LIKE. 1 hit.
[Graphical view]

Sequencei

Sequence statusi: Complete.

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

P05540-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MCRGFSFRHL LPLLLLQLSK LLVVTQGKTV VLGKEGGSAE LPCESTSRRS
60 70 80 90 100
ASFAWKSSDQ KTILGYKNKL LIKGSLELYS RFDSRKNAWE RGSFPLIINK
110 120 130 140 150
LRMEDSQTYV CELENKKEEV ELWVFRVTFN PGTRLLQGQS LTLILDSNPK
160 170 180 190 200
VSDPPIECKH KSSNIVKDSK AFSTHSLRIQ DSGIWNCTVT LNQKKHSFDM
210 220 230 240 250
KLSVLGFAST SITAYKSEGE SAEFSFPLNL GEESLQGELR WKAEKAPSSQ
260 270 280 290 300
SWITFSLKNQ KVSVQKSTSN PKFQLSETLP LTLQIPQVSL QFAGSGNLTL
310 320 330 340 350
TLDRGILYQE VNLVVMKVTQ PDSNTLTCEV MGPTSPKMRL ILKQENQEAR
360 370 380 390 400
VSRQEKVIQV QAPEAGVWQC LLSEGEEVKM DSKIQVLSKG LNQTMFLAVV
410 420 430 440 450
LGSAFSFLVF TGLCILFCVR CRHQQRQAAR MSQIKRLLSE KKTCQCSHRM

QKSHNLI
Length:457
Mass (Da):51,438
Last modified:November 1, 1988 - v1
Checksum:i477BE157D30954C1
GO

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
M15768 mRNA. Translation: AAA40901.1.
PIRiA27449.
RefSeqiNP_036837.1. NM_012705.1.
XP_006237393.1. XM_006237331.3.
XP_008761502.1. XM_008763280.2.
UniGeneiRn.10748.

Genome annotation databases

EnsembliENSRNOT00000021915; ENSRNOP00000021915; ENSRNOG00000016294.
GeneIDi24932.
KEGGirno:24932.
UCSCiRGD:2306. rat.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
M15768 mRNA. Translation: AAA40901.1.
PIRiA27449.
RefSeqiNP_036837.1. NM_012705.1.
XP_006237393.1. XM_006237331.3.
XP_008761502.1. XM_008763280.2.
UniGeneiRn.10748.

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
PDB entryMethodResolution (Å)ChainPositionsPDBsum
1CIDX-ray2.80A210-386[»]
ProteinModelPortaliP05540.
SMRiP05540.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

MINTiMINT-4996350.
STRINGi10116.ENSRNOP00000021915.

PTM databases

UniCarbKBiP05540.

Proteomic databases

PaxDbiP05540.
PRIDEiP05540.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsembliENSRNOT00000021915; ENSRNOP00000021915; ENSRNOG00000016294.
GeneIDi24932.
KEGGirno:24932.
UCSCiRGD:2306. rat.

Organism-specific databases

CTDi920.
RGDi2306. Cd4.

Phylogenomic databases

eggNOGiENOG410IK9F. Eukaryota.
ENOG410YWI4. LUCA.
GeneTreeiENSGT00390000001745.
HOGENOMiHOG000008696.
HOVERGENiHBG005281.
InParanoidiP05540.
KOiK06454.
OMAiPEAGMWQ.
OrthoDBiEOG091G0AZL.
PhylomeDBiP05540.
TreeFamiTF335974.

Enzyme and pathway databases

ReactomeiR-RNO-1462054. Alpha-defensins.
R-RNO-202424. Downstream TCR signaling.
R-RNO-202427. Phosphorylation of CD3 and TCR zeta chains.
R-RNO-202430. Translocation of ZAP-70 to Immunological synapse.
R-RNO-202433. Generation of second messenger molecules.
R-RNO-389948. PD-1 signaling.
R-RNO-449147. Signaling by Interleukins.
R-RNO-8856825. Cargo recognition for clathrin-mediated endocytosis.
R-RNO-8856828. Clathrin-mediated endocytosis.

Miscellaneous databases

EvolutionaryTraceiP05540.
PROiP05540.

Gene expression databases

BgeeiENSRNOG00000016294.
GenevisibleiP05540. RN.

Family and domain databases

Gene3Di2.60.40.10. 4 hits.
InterProiIPR000973. CD4.
IPR015274. CD4-extracel.
IPR007110. Ig-like_dom.
IPR013783. Ig-like_fold.
IPR008424. Ig_C2-set.
IPR003599. Ig_sub.
IPR013106. Ig_V-set.
IPR013151. Immunoglobulin.
IPR021963. Tcell_CD4_Cterm.
[Graphical view]
PANTHERiPTHR11422:SF0. PTHR11422:SF0. 1 hit.
PfamiPF05790. C2-set. 2 hits.
PF09191. CD4-extracel. 1 hit.
PF00047. ig. 1 hit.
PF12104. Tcell_CD4_C. 1 hit.
[Graphical view]
PRINTSiPR00692. CD4TCANTIGEN.
SMARTiSM00409. IG. 3 hits.
SM00406. IGv. 1 hit.
[Graphical view]
SUPFAMiSSF48726. SSF48726. 3 hits.
PROSITEiPS50835. IG_LIKE. 1 hit.
[Graphical view]
ProtoNetiSearch...

Entry informationi

Entry nameiCD4_RAT
AccessioniPrimary (citable) accession number: P05540
Entry historyi
Integrated into UniProtKB/Swiss-Prot: November 1, 1988
Last sequence update: November 1, 1988
Last modified: November 2, 2016
This is version 153 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, Direct protein sequencing, Reference proteome

Documents

  1. PDB cross-references
    Index of Protein Data Bank (PDB) cross-references
  2. SIMILARITY comments
    Index of protein domains and families

Similar proteinsi

Links to similar proteins from the UniProt Reference Clusters (UniRef) at 100%, 90% and 50% sequence identity:
100%UniRef100 combines identical sequences and sub-fragments with 11 or more residues from any organism into one UniRef entry.
90%UniRef90 is built by clustering UniRef100 sequences that have at least 90% sequence identity to, and 80% overlap with, the longest sequence (a.k.a seed sequence).
50%UniRef50 is built by clustering UniRef90 seed sequences that have at least 50% sequence identity to, and 80% overlap with, the longest sequence in the cluster.