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Protein

Antigen-presenting glycoprotein CD1d

Gene

Cd1d

Organism
Rattus norvegicus (Rat)
Status
Reviewed-Annotation score: Annotation score: 4 out of 5-Experimental evidence at transcript leveli

Functioni

Antigen-presenting protein that binds self and non-self glycolipids and presents them to T-cell receptors on natural killer T-cells.By similarity

Sites

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Binding sitei97 – 971GlycolipidBy similarity
Binding sitei170 – 1701GlycolipidBy similarity
Binding sitei173 – 1731GlycolipidBy similarity

GO - Biological processi

Complete GO annotation...

Keywords - Biological processi

Immunity, Innate immunity

Names & Taxonomyi

Protein namesi
Recommended name:
Antigen-presenting glycoprotein CD1d
Alternative name(s):
CD_antigen: CD1d
Gene namesi
Name:Cd1d
Synonyms:Cd1d1
OrganismiRattus norvegicus (Rat)
Taxonomic identifieri10116 [NCBI]
Taxonomic lineageiEukaryotaMetazoaChordataCraniataVertebrataEuteleostomiMammaliaEutheriaEuarchontogliresGliresRodentiaSciurognathiMuroideaMuridaeMurinaeRattus
Proteomesi
  • UP000002494 Componenti: Unplaced

Organism-specific databases

RGDi2296. Cd1d1.

Subcellular locationi

  • Cell membrane By similarity; Single-pass type I membrane protein By similarity
  • Basolateral cell membrane By similarity; Single-pass type I membrane protein By similarity
  • Endosome membrane By similarity; Single-pass type I membrane protein By similarity
  • Lysosome membrane By similarity; Single-pass type I membrane protein By similarity
  • Endoplasmic reticulum membrane By similarity; Single-pass type I membrane protein By similarity

  • Note: Subject to intracellular trafficking between the cell membrane, endosomes and lysosomes.By similarity

Topology

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Topological domaini18 – 304287ExtracellularSequence analysisAdd
BLAST
Transmembranei305 – 32521HelicalSequence analysisAdd
BLAST
Topological domaini326 – 33611CytoplasmicSequence analysisAdd
BLAST

GO - Cellular componenti

Complete GO annotation...

Keywords - Cellular componenti

Cell membrane, Endoplasmic reticulum, Endosome, Lysosome, Membrane

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Signal peptidei1 – 1717Sequence analysisAdd
BLAST
Chaini18 – 336319Antigen-presenting glycoprotein CD1dPRO_0000014595Add
BLAST

Amino acid modifications

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Glycosylationi24 – 241N-linked (GlcNAc...)Sequence analysis
Glycosylationi37 – 371N-linked (GlcNAc...)Sequence analysis
Glycosylationi59 – 591N-linked (GlcNAc...)Sequence analysis
Disulfide bondi121 ↔ 185PROSITE-ProRule annotation
Glycosylationi127 – 1271N-linked (GlcNAc...)Sequence analysis
Glycosylationi182 – 1821N-linked (GlcNAc...)Sequence analysis
Disulfide bondi225 ↔ 280PROSITE-ProRule annotation

Keywords - PTMi

Disulfide bond, Glycoprotein

Proteomic databases

PaxDbiQ63493.
PRIDEiQ63493.

PTM databases

iPTMnetiQ63493.

Interactioni

Subunit structurei

Heterodimer with B2M (beta-2-microglobulin). Interacts with MHC II and CD74 (By similarity).By similarity

Protein-protein interaction databases

STRINGi10116.ENSRNOP00000022150.

Structurei

3D structure databases

ProteinModelPortaliQ63493.
SMRiQ63493. Positions 24-296.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Domains and Repeats

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Domaini198 – 29699Ig-likeAdd
BLAST

Region

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Regioni170 – 1734Glycolipid bindingBy similarity

Motif

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Motifi332 – 3354Internalization signalBy similarity

Sequence similaritiesi

Keywords - Domaini

Immunoglobulin domain, Signal, Transmembrane, Transmembrane helix

Phylogenomic databases

eggNOGiENOG410ITUC. Eukaryota.
ENOG4111EG6. LUCA.
HOGENOMiHOG000111666.
HOVERGENiHBG004453.
InParanoidiQ63493.
KOiK06448.
PhylomeDBiQ63493.

Family and domain databases

Gene3Di2.60.40.10. 1 hit.
3.30.500.10. 1 hit.
InterProiIPR007110. Ig-like_dom.
IPR013783. Ig-like_fold.
IPR003597. Ig_C1-set.
IPR011161. MHC_I-like_Ag-recog.
IPR011162. MHC_I/II-like_Ag-recog.
[Graphical view]
PfamiPF07654. C1-set. 1 hit.
PF16497. MHC_I_3. 1 hit.
[Graphical view]
SMARTiSM00407. IGc1. 1 hit.
[Graphical view]
SUPFAMiSSF48726. SSF48726. 1 hit.
SSF54452. SSF54452. 1 hit.
PROSITEiPS50835. IG_LIKE. 1 hit.
[Graphical view]

Sequencei

Sequence statusi: Complete.

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

Q63493-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MLYLPCLLLW AFPQFWGQSE VQQNYTFGCL QISSFANRSW SRTDSVVWLG
60 70 80 90 100
DLQTHRWSND SDTISFTKPW SQGKFSNQQW EKLQHMFQVY RTSFTRDIKE
110 120 130 140 150
IVKMMSPKED YPIEVQLSAG CEMYPGNASE SFLHVAFQGE YVVRFHGTSW
160 170 180 190 200
QKVPEAPSWL DLPIKMLNAD EGTRETVQIL LNDTCPQFVR GLLEAGKPDL
210 220 230 240 250
EKQEKPVAWL SRGPNPAHGH LQLVCHVSGF HPKPVWVMWM RGDQEQGGTH
260 270 280 290 300
RGDILPNADE TWYLQATLDV EAGDEAGLAC RVKHSSLEGQ DIILYWGGRQ
310 320 330
VSPVLIFLIV GVLVLVVCAV AYYIIRKRRR SYQDIM
Length:336
Mass (Da):38,542
Last modified:November 1, 1999 - v2
Checksum:iD794B944A7800B62
GO

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
D26439 mRNA. Translation: BAA05455.2.
PIRiI56235.
RefSeqiNP_058775.1. NM_017079.1.
UniGeneiRn.11120.

Genome annotation databases

GeneIDi25109.
KEGGirno:25109.
UCSCiRGD:2296. rat.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
D26439 mRNA. Translation: BAA05455.2.
PIRiI56235.
RefSeqiNP_058775.1. NM_017079.1.
UniGeneiRn.11120.

3D structure databases

ProteinModelPortaliQ63493.
SMRiQ63493. Positions 24-296.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

STRINGi10116.ENSRNOP00000022150.

PTM databases

iPTMnetiQ63493.

Proteomic databases

PaxDbiQ63493.
PRIDEiQ63493.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

GeneIDi25109.
KEGGirno:25109.
UCSCiRGD:2296. rat.

Organism-specific databases

CTDi12479.
RGDi2296. Cd1d1.

Phylogenomic databases

eggNOGiENOG410ITUC. Eukaryota.
ENOG4111EG6. LUCA.
HOGENOMiHOG000111666.
HOVERGENiHBG004453.
InParanoidiQ63493.
KOiK06448.
PhylomeDBiQ63493.

Miscellaneous databases

PROiQ63493.

Family and domain databases

Gene3Di2.60.40.10. 1 hit.
3.30.500.10. 1 hit.
InterProiIPR007110. Ig-like_dom.
IPR013783. Ig-like_fold.
IPR003597. Ig_C1-set.
IPR011161. MHC_I-like_Ag-recog.
IPR011162. MHC_I/II-like_Ag-recog.
[Graphical view]
PfamiPF07654. C1-set. 1 hit.
PF16497. MHC_I_3. 1 hit.
[Graphical view]
SMARTiSM00407. IGc1. 1 hit.
[Graphical view]
SUPFAMiSSF48726. SSF48726. 1 hit.
SSF54452. SSF54452. 1 hit.
PROSITEiPS50835. IG_LIKE. 1 hit.
[Graphical view]
ProtoNetiSearch...

Publicationsi

  1. "Structural analysis of the rat homologue of CD1. Evidence for evolutionary conservation of the CD1D class and widespread transcription by rat cells."
    Ichimiya S., Kikuchi K., Matsuura A.
    J. Immunol. 153:1112-1123(1994) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [MRNA].
    Tissue: Lymphoma.
  2. "Structural organization of rat CD1 typifies evolutionarily conserved CD1D class genes."
    Katabami S., Matsuura A., Chen H., Imai K., Kikuchi K.
    Immunogenetics 48:22-31(1998) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [MRNA].
    Tissue: Lymphoma.

Entry informationi

Entry nameiCD1D_RAT
AccessioniPrimary (citable) accession number: Q63493
Entry historyi
Integrated into UniProtKB/Swiss-Prot: December 1, 2000
Last sequence update: November 1, 1999
Last modified: June 8, 2016
This is version 111 of the entry and version 2 of the sequence. [Complete history]
Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programChordata Protein Annotation Program

Miscellaneousi

Miscellaneous

During protein synthesis and maturation, CD1 family members bind endogenous lipids that are replaced by lipid or glycolipid antigens when the proteins are internalized and pass through endosomes, before trafficking back to the cell surface.By similarity

Keywords - Technical termi

Complete proteome, Reference proteome

Documents

  1. 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.