Reviewed,
UniProtKB/Swiss-Prot P04234 (CD3D_HUMAN)
Last modified
November 24, 2009.
Version 106.
History...
Clusters with 100%,
90%,
50% identity |
Documents (7) |
Third-party data |
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Names and origin
| Protein names | Recommended name: T-cell surface glycoprotein CD3 delta chain Alternative name(s): T-cell receptor T3 delta chain CD_antigen=CD3d | ||||
| Gene names |
| ||||
| Organism | Homo sapiens (Human) [Complete proteome] | ||||
| Taxonomic identifier | 9606 [NCBI] | ||||
| Taxonomic lineage | Eukaryota › Metazoa › Chordata › Craniata › Vertebrata › Euteleostomi › Mammalia › Eutheria › Euarchontoglires › Primates › Haplorrhini › Catarrhini › Hominidae › Homo |
Protein attributes
| Sequence length | 171 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 | The CD3 complex mediates signal transduction. |
| Subunit structure | The TCR/CD3 complex of T-lymphocytes consists of either a TCR alpha/beta or TCR gamma/delta heterodimer coexpressed at the cell surface with the invariant subunits of CD3 labeled gamma, delta, epsilon, zeta, and eta. Ref.11 |
| Subcellular location | |
| Involvement in disease | Defects in CD3D are a cause of severe combined immunodeficiency autosomal recessive T-cell-negative/B-cell-positive/NK-cell-positive (T-/B+/NK+ SCID) [MIM:608971]. A form of severe combined immunodeficiency (SCID), a genetically and clinically heterogeneous group of rare congenital disorders characterized by impairment of both humoral and cell-mediated immunity, leukopenia, and low or absent antibody levels. Patients present in infancy recurrent, persistent infections by opportunistic organisms. The common characteristic of all types of SCID is absence of T-cell-mediated cellular immunity due to a defect in T-cell development. Ref.6 Ref.7 Ref.8 Ref.9 |
| Sequence similarities | Contains 1 ITAM domain. |
Ontologies
| Keywords | |
|---|---|
| Cellular component | Membrane |
| Coding sequence diversity | Polymorphism |
| Disease | SCID |
| Domain | Signal Transmembrane |
| Molecular function | Receptor |
| PTM | Disulfide bond Glycoprotein Phosphoprotein |
| Technical term | 3D-structure Complete proteome Direct protein sequencing |
| Gene Ontology (GO) | |
| Biological process | cell surface receptor linked signal transduction Inferred by curator. Source: UniProtKB positive thymic T cell selectionInferred from sequence or structural similarity. Source: UniProtKB |
| Cellular component | cytoplasm Non-traceable author statement. Source: UniProtKB integral to membraneInferred from electronic annotation. Source: UniProtKB-SubCell |
| Molecular function | protein heterodimerization activity Inferred from physical interaction. Source: UniProtKB transmembrane receptor activityInferred by curator. Source: UniProtKB |
| Complete GO annotation... | |
Sequence annotation (Features)
| Feature key | Position(s) | Length | Description | Graphical view | Feature identifier | ||||||||||||||||||||
Molecule processing | |||||||||||||||||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
| Signal peptide | 1 – 21 | 21 | |||||||||||||||||||||||
| Chain | 22 – 171 | 150 | T-cell surface glycoprotein CD3 delta chain | PRO_0000016487 | |||||||||||||||||||||
Regions | |||||||||||||||||||||||||
| Topological domain | 22 – 105 | 84 | Extracellular Potential | ||||||||||||||||||||||
| Transmembrane | 106 – 126 | 21 | Potential | ||||||||||||||||||||||
| Topological domain | 127 – 171 | 45 | Cytoplasmic Potential | ||||||||||||||||||||||
| Domain | 138 – 166 | 29 | ITAM | ||||||||||||||||||||||
Amino acid modifications | |||||||||||||||||||||||||
| Modified residue | 149 | 1 | Phosphotyrosine Ref.6 Ref.8 Ref.9 | ||||||||||||||||||||||
| Modified residue | 160 | 1 | Phosphotyrosine Ref.6 Ref.8 Ref.9 | ||||||||||||||||||||||
| Glycosylation | 38 | 1 | N-linked (GlcNAc...) Potential | ||||||||||||||||||||||
| Glycosylation | 74 | 1 | N-linked (GlcNAc...) Potential | ||||||||||||||||||||||
| Disulfide bond | 37 ↔ 73 | Ref.11 | |||||||||||||||||||||||
Natural variations | |||||||||||||||||||||||||
| Natural variant | 147 | 1 | Q → R: dbSNP rs45510201. | VAR_049646 | |||||||||||||||||||||
Secondary structure | |||||||||||||||||||||||||
Helix Strand Turn | |||||||||||||||||||||||||
| Beta strand | 26 – 29 | 4 | |||||||||||||||||||||||
| Beta strand | 32 – 36 | 5 | |||||||||||||||||||||||
| Beta strand | 41 – 46 | 6 | |||||||||||||||||||||||
| Beta strand | 50 – 52 | 3 | |||||||||||||||||||||||
| Helix | 53 – 55 | 3 | |||||||||||||||||||||||
| Beta strand | 57 – 62 | 6 | |||||||||||||||||||||||
| Helix | 63 – 65 | 3 | |||||||||||||||||||||||
| Beta strand | 68 – 73 | 6 | |||||||||||||||||||||||
| Beta strand | 84 – 91 | 8 | |||||||||||||||||||||||
Sequences
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References
| « Hide 'large scale' references | |
| [1] | "Exon/intron organization of the genes coding for the delta chains of the human and murine T-cell receptor/T3 complex." van den Elsen P., Georgopoulos K., Shepley B.-A., Orkin S., Terhorst C. Proc. Natl. Acad. Sci. U.S.A. 83:2944-2948(1986) [PubMed: 2939461] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [GENOMIC DNA]. |
| [2] | "Isolation of cDNA clones encoding the 20K T3 glycoprotein of human T-cell receptor complex." van den Elsen P., Shepley B.-A., Borst J., Coligan J.E., Markham A.F., Orkin S., Terhorst C. Nature 312:413-418(1984) [PubMed: 6095101] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [GENOMIC DNA]. |
| [3] | "T3 delta pre-mRNA is transcribed from a non-TATA promoter and is alternatively spliced in human T cells." Tunnacliffe A., Sims J.E., Rabbitts T.H. EMBO J. 5:1245-1252(1986) [PubMed: 3488209] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [GENOMIC DNA]. |
| [4] | "The status, quality, and expansion of the NIH full-length cDNA project: the Mammalian Gene Collection (MGC)." The MGC Project Team Genome Res. 14:2121-2127(2004) [PubMed: 15489334] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA]. Tissue: Blood. |
| [5] | "Dephosphorylation of the human T lymphocyte CD3 antigen." Alexander D., Goris J., Marais R., Rothbard J., Merlevede W., Crumpton M.J. Eur. J. Biochem. 181:55-65(1989) [PubMed: 2540970] [Abstract] Cited for: PROTEIN SEQUENCE OF 128-171. |
| [6] | "Profiling of tyrosine phosphorylation pathways in human cells using mass spectrometry." Salomon A.R., Ficarro S.B., Brill L.M., Brinker A., Phung Q.T., Ericson C., Sauer K., Brock A., Horn D.M., Schultz P.G., Peters E.C. Proc. Natl. Acad. Sci. U.S.A. 100:443-448(2003) [PubMed: 12522270] [Abstract] Cited for: PHOSPHORYLATION [LARGE SCALE ANALYSIS] AT TYR-149 AND TYR-160, MASS SPECTROMETRY. |
| [7] | "Effect of CD3delta deficiency on maturation of alpha/beta and gamma/delta T-cell lineages in severe combined immunodeficiency." Dadi H.K., Simon A.J., Roifman C.M. N. Engl. J. Med. 349:1821-1828(2003) [PubMed: 14602880] [Abstract] Cited for: INVOLVEMENT IN T(-)/B(+)/NK(+) SCID. |
| [8] | "Immunoaffinity profiling of tyrosine phosphorylation in cancer cells." Rush J., Moritz A., Lee K.A., Guo A., Goss V.L., Spek E.J., Zhang H., Zha X.-M., Polakiewicz R.D., Comb M.J. Nat. Biotechnol. 23:94-101(2005) [PubMed: 15592455] [Abstract] Cited for: PHOSPHORYLATION [LARGE SCALE ANALYSIS] AT TYR-149 AND TYR-160, MASS SPECTROMETRY. |
| [9] | "Quantitative phosphoproteome analysis using a dendrimer conjugation chemistry and tandem mass spectrometry." Tao W.A., Wollscheid B., O'Brien R., Eng J.K., Li X.-J., Bodenmiller B., Watts J.D., Hood L., Aebersold R. Nat. Methods 2:591-598(2005) [PubMed: 16094384] [Abstract] Cited for: PHOSPHORYLATION [LARGE SCALE ANALYSIS] AT TYR-149 AND TYR-160, MASS SPECTROMETRY. Tissue: T-cell. |
| [10] | "Quantitative phosphoproteomic analysis of T cell receptor signaling reveals system-wide modulation of protein-protein interactions." Mayya V., Lundgren D.H., Hwang S.-I., Rezaul K., Wu L., Eng J.K., Rodionov V., Han D.K. Sci. Signal. 2:RA46-RA46(2009) [PubMed: 19690332] [Abstract] Cited for: PHOSPHORYLATION [LARGE SCALE ANALYSIS] AT TYR-149 AND TYR-160, MASS SPECTROMETRY. Tissue: T-cell. |
| [11] | "Crystal structure of a human CD3-epsilon/delta dimer in complex with a UCHT1 single-chain antibody fragment." Arnett K.L., Harrison S.C., Wiley D.C. Proc. Natl. Acad. Sci. U.S.A. 101:16268-16273(2004) [PubMed: 15534202] [Abstract] Cited for: X-RAY CRYSTALLOGRAPHY (1.9 ANGSTROMS) OF 23-100 IN COMPLEX WITH CD3E AND ANTIBODY FRAGMENT, SUBUNIT, DISULFIDE BOND. |
| + | Additional computationally mapped references. |
Cross-references
Sequence databases | |||||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
| X03934 Genomic DNA. Translation: CAA27573.1. M12727, M12726 Genomic DNA. Translation: AAA51792.1. BC039035 mRNA. Translation: AAH39035.1. BC070321 mRNA. Translation: AAH70321.1. X01451 Genomic DNA. Translation: CAA25683.1. | |||||||||||||
| IPI | IPI00022934. | ||||||||||||
| PIR | RWHUD1. A94706. | ||||||||||||
| RefSeq | NP_000723.1. NP_001035741.1. | ||||||||||||
| UniGene | Hs.2259 Hs.504048 | ||||||||||||
3D structure databases | |||||||||||||
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| DisProt | DP00505. | ||||||||||||
| ModBase | Search... | ||||||||||||
Protein-protein interaction databases | |||||||||||||
| STRING | P04234. | ||||||||||||
PTM databases | |||||||||||||
| PhosphoSite | P04234. | ||||||||||||
Proteomic databases | |||||||||||||
| PRIDE | P04234. | ||||||||||||
Genome annotation databases | |||||||||||||
| Ensembl | ENST00000300692; ENSP00000300692; ENSG00000167286; Homo sapiens. [Genome view] | ||||||||||||
| GeneID | 915. | ||||||||||||
| KEGG | hsa:915. | ||||||||||||
| UCSC | uc001pss.1. human. | ||||||||||||
Organism-specific databases | |||||||||||||
| CTD | 915. | ||||||||||||
| GeneCards | GC11M117714. | ||||||||||||
| H-InvDB | HIX0010180. | ||||||||||||
| HGNC | HGNC:1673. CD3D. | ||||||||||||
| HPA | CAB013055. | ||||||||||||
| MIM | 186790. gene. 608971. phenotype. | ||||||||||||
| PharmGKB | PA26215. | ||||||||||||
| GenAtlas | Search... | ||||||||||||
Phylogenomic databases | |||||||||||||
| HOGENOM | P04234. | ||||||||||||
| HOVERGEN | P04234. | ||||||||||||
| OMA | GHETGRL | ||||||||||||
| OrthoDB | EOG99KJ9F | ||||||||||||
Enzyme and pathway databases | |||||||||||||
| Pathway_Interaction_DB | cd8tcrdownstreampathway. Downstream signaling in naive CD8+ T cells. il12_stat4pathway. IL12 signaling mediated by STAT4. il12_2pathway. IL12-mediated signaling events. tcrpathway. TCR signaling in naive CD4+ T cells. cd8tcrpathway. TCR signaling in naive CD8+ T cells. | ||||||||||||
| Reactome | REACT_6900. Signaling in Immune system. | ||||||||||||
Gene expression databases | |||||||||||||
| ArrayExpress | P04234. | ||||||||||||
| Bgee | P04234. | ||||||||||||
| CleanEx | HS_CD3D. | ||||||||||||
| Genevestigator | P04234. | ||||||||||||
| GermOnline | ENSG00000167286. Homo sapiens. | ||||||||||||
Family and domain databases | |||||||||||||
| InterPro | IPR015485. CD3_delta. IPR015484. CD3_gsu/dsu. IPR013783. Ig-like_fold. IPR003110. Phos_immunorcpt_sig_ITAM. [Graphical view] | ||||||||||||
| Gene3D | G3DSA:2.60.40.10. Ig-like_fold. 1 hit. | ||||||||||||
| PANTHER | PTHR10570:SF1. CD3_delta. 1 hit. PTHR10570. CD3_gamma_delta. 1 hit. | ||||||||||||
| Pfam | PF02189. ITAM. 1 hit. [Graphical view] | ||||||||||||
| SMART | SM00077. ITAM. 1 hit. [Graphical view] | ||||||||||||
| PROSITE | PS51055. ITAM_1. 1 hit. [Graphical view] | ||||||||||||
| ProtoNet | Search... | ||||||||||||
Other Resources | |||||||||||||
| NextBio | 3784. | ||||||||||||
| SOURCE | Search... | ||||||||||||
Entry information
| Entry name | CD3D_HUMAN | ||||||||
| Accession | Primary (citable) accession number: P04234 | ||||||||
| Entry history |
| ||||||||
| Entry status | Reviewed (UniProtKB/Swiss-Prot) | ||||||||
| Annotation project | HPI (Human Proteome Initiative) | ||||||||
| Disclaimer | Any medical or genetic information present in this entry is provided for research, educational and informational purposes only. It is not in any way intended to be used as a substitute for professional medical advice, diagnosis, treatment or care. | ||||||||
Relevant documents
| Human cell differentiation molecules CD nomenclature of surface proteins of human leucocytes and list of entries |
| Human chromosome 11 Human chromosome 11: entries, gene names and cross-references to MIM |
| Human entries with polymorphisms or disease mutations List of human entries with polymorphisms or disease mutations |
| Human polymorphisms and disease mutations Index of human polymorphisms and disease mutations |
| MIM cross-references Online Mendelian Inheritance in Man (MIM) cross-references in UniProtKB/Swiss-Prot |
| PDB cross-references Index of Protein Data Bank (PDB) cross-references |
| SIMILARITY comments Index of protein domains and families |

Clusters with


