Skip Header

You are using a version of browser that may not display all the features of this website. Please consider upgrading your browser.
Protein
Submitted name:

Class II MHC RT1.D(N) beta chain

Gene

RT1-Db1

Organism
Rattus norvegicus (Rat)
Status
Unreviewed-Annotation score: Annotation score: 3 out of 5-Experimental evidence at transcript leveli

Functioni

GO - Biological processi

  1. antigen processing and presentation of exogenous peptide antigen via MHC class II Source: Ensembl
  2. immune response Source: InterPro
Complete GO annotation...

Keywords - Biological processi

Immunity

Enzyme and pathway databases

ReactomeiREACT_198830. MHC class II antigen presentation.
REACT_233097. Generation of second messenger molecules.
REACT_253779. Phosphorylation of CD3 and TCR zeta chains.
REACT_254949. Downstream TCR signaling.
REACT_260327. PD-1 signaling.
REACT_263109. Translocation of ZAP-70 to Immunological synapse.

Names & Taxonomyi

Protein namesi
Submitted name:
Class II MHC RT1.D(N) beta chainImported
Submitted name:
MHC class II antigenImported
Submitted name:
RCG60985, isoform CRA_aImported
Submitted name:
RT1 class II, D beta 1Imported
Submitted name:
RT1-Db1Imported
Submitted name:
Rano class II histocompatibility antigen, D-1 beta chainImported
Gene namesi
Name:RT1-Db1Imported
Synonyms:Arrb2-psImported, Db1Imported, Hla-dmaImported, Hla-dmbImported, Psmb9Imported, RT1-BaImported, RT1-BbImported, RT1-DaImported, RT1-DbImported, RT1-Db2Imported, RT1-DObImported, RT1.D(n)Imported, Tap1Imported, Tap2Imported, TesbImported
ORF Names:rCG_60985Imported
OrganismiRattus norvegicus (Rat)
Taxonomic identifieri10116 [NCBI]
Taxonomic lineageiEukaryotaMetazoaChordataCraniataVertebrataEuteleostomiMammaliaEutheriaEuarchontogliresGliresRodentiaSciurognathiMuroideaMuridaeMurinaeRattus
ProteomesiUP000002494: Chromosome 20

Organism-specific databases

RGDi1593282. RT1-Db1.

Subcellular locationi

GO - Cellular componenti

  1. integral component of membrane Source: UniProtKB-KW
  2. MHC class II protein complex Source: UniProtKB-KW
Complete GO annotation...

Keywords - Cellular componenti

Membrane, MHC IIUniRule annotationSAAS annotation

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Signal peptidei1 – 2626 PotentialImportedAdd
BLAST
Chaini27 – 264238Class II MHC RT1.D(n) beta chainImportedPRO_5000055051Add
BLAST

Keywords - PTMi

Disulfide bondSAAS annotation

Expressioni

Gene expression databases

GenevestigatoriQ9TQA6.

Family & Domainsi

Sequence similaritiesi

Contains Ig-like C1-type (immunoglobulin-like) domain.SAAS annotation

Keywords - Domaini

SignalImported, Transmembrane, Transmembrane helixSAAS annotation

Phylogenomic databases

GeneTreeiENSGT00760000118970.
HOVERGENiHBG012730.
KOiK06752.
OMAiNGTERRY.
OrthoDBiEOG7PS1GV.
TreeFamiTF336626.

Family and domain databases

Gene3Di2.60.40.10. 1 hit.
3.10.320.10. 1 hit.
InterProiIPR007110. Ig-like_dom.
IPR013783. Ig-like_fold.
IPR003006. Ig/MHC_CS.
IPR003597. Ig_C1-set.
IPR011162. MHC_I/II-like_Ag-recog.
IPR014745. MHC_II_a/b_N.
IPR000353. MHC_II_b_N.
[Graphical view]
PfamiPF07654. C1-set. 1 hit.
PF00969. MHC_II_beta. 1 hit.
[Graphical view]
ProDomiPD000328. MHC_II_b_N. 1 hit.
[Graphical view] [Entries sharing at least one domain]
SMARTiSM00407. IGc1. 1 hit.
SM00921. MHC_II_beta. 1 hit.
[Graphical view]
SUPFAMiSSF54452. SSF54452. 1 hit.
PROSITEiPS50835. IG_LIKE. 1 hit.
PS00290. IG_MHC. 1 hit.
[Graphical view]

Sequencei

Sequence statusi: Complete.

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

Q9TQA6-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MVWLARDSCV AAVILLLTVL SPPVALVRDP TPRFLEQYKS ECYFYNGTQR
60 70 80 90 100
VRLLVRYIYN REEYTRFDSD VGEFRAVTEL GRRDTEYYNK QKEYIERERA
110 120 130 140 150
AVDTICRHNY EISDRFLVPR TVEPKVTVYP SKTQPLKHHN LLVCSVSDFY
160 170 180 190 200
PGSVEVRWFR NGEEEKDGLV STGLIPNGDW TFQLLVMLEM VPQGGEVYTC
210 220 230 240 250
QVEHPSLTSP VRVEWKAQST SAQNKKMSGV GGIVLGLLFL GAGLFVYFRN
260
QKGQSGLQPT GLLN
Length:264
Mass (Da):30,202
Last modified:May 1, 2000 - v1
Checksum:iC57FCD5C5CBF0FB3
GO

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AABR06099861 Genomic DNA. No translation available.
AF084933 mRNA. Translation: AAD39083.1.
AY626207 mRNA. Translation: AAV40636.1.
KC222950 mRNA. Translation: AGV39047.1.
BX883043 Genomic DNA. Translation: CAE83947.1.
CH473988 Genomic DNA. Translation: EDL96798.1.
RefSeqiNP_001008884.1. NM_001008884.2.
UniGeneiRn.33311.

Genome annotation databases

EnsembliENSRNOT00000000522; ENSRNOP00000000522; ENSRNOG00000033215.
GeneIDi294270.
KEGGirno:294270.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AABR06099861 Genomic DNA. No translation available.
AF084933 mRNA. Translation: AAD39083.1.
AY626207 mRNA. Translation: AAV40636.1.
KC222950 mRNA. Translation: AGV39047.1.
BX883043 Genomic DNA. Translation: CAE83947.1.
CH473988 Genomic DNA. Translation: EDL96798.1.
RefSeqiNP_001008884.1. NM_001008884.2.
UniGeneiRn.33311.

3D structure databases

ModBaseiSearch...
MobiDBiSearch...

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsembliENSRNOT00000000522; ENSRNOP00000000522; ENSRNOG00000033215.
GeneIDi294270.
KEGGirno:294270.

Organism-specific databases

CTDi294270.
RGDi1593282. RT1-Db1.

Phylogenomic databases

GeneTreeiENSGT00760000118970.
HOVERGENiHBG012730.
KOiK06752.
OMAiNGTERRY.
OrthoDBiEOG7PS1GV.
TreeFamiTF336626.

Enzyme and pathway databases

ReactomeiREACT_198830. MHC class II antigen presentation.
REACT_233097. Generation of second messenger molecules.
REACT_253779. Phosphorylation of CD3 and TCR zeta chains.
REACT_254949. Downstream TCR signaling.
REACT_260327. PD-1 signaling.
REACT_263109. Translocation of ZAP-70 to Immunological synapse.

Miscellaneous databases

NextBioi637862.

Gene expression databases

GenevestigatoriQ9TQA6.

Family and domain databases

Gene3Di2.60.40.10. 1 hit.
3.10.320.10. 1 hit.
InterProiIPR007110. Ig-like_dom.
IPR013783. Ig-like_fold.
IPR003006. Ig/MHC_CS.
IPR003597. Ig_C1-set.
IPR011162. MHC_I/II-like_Ag-recog.
IPR014745. MHC_II_a/b_N.
IPR000353. MHC_II_b_N.
[Graphical view]
PfamiPF07654. C1-set. 1 hit.
PF00969. MHC_II_beta. 1 hit.
[Graphical view]
ProDomiPD000328. MHC_II_b_N. 1 hit.
[Graphical view] [Entries sharing at least one domain]
SMARTiSM00407. IGc1. 1 hit.
SM00921. MHC_II_beta. 1 hit.
[Graphical view]
SUPFAMiSSF54452. SSF54452. 1 hit.
PROSITEiPS50835. IG_LIKE. 1 hit.
PS00290. IG_MHC. 1 hit.
[Graphical view]
ProtoNetiSearch...

Publicationsi

« Hide 'large scale' publications
  1. "Nucleotide sequences of three distinct complementary DNA clones encoding rat class II major histocompatibility complex RT1.D beta-chain proteins."
    Tian L., Wang M., Yu J., Kahan B.D., Stepkowski S.M.
    Immunogenetics 49:735-737(1999) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE.
    Strain: Brown NorwayImported.
  2. Cited for: NUCLEOTIDE SEQUENCE.
    Strain: Brown NorwayImported.
  3. "The genomic sequence and comparative analysis of the rat major histocompatibility complex."
    Hurt P., Walter L., Sudbrak R., Klages S., Mueller I., Shiina T., Inoko H., Lehrach H., Guenther E., Reinhardt R., Himmelbauer H.
    Genome Res. 14:631-639(2004) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE.
    Strain: Brown NorwayImported.
  4. "Open reading frame sequencing and structure-based alignment of polypeptides encoded by RT1-Bb, RT1-Ba, RT1-Db, and RT1-Da alleles."
    Ettinger R.A., Moustakas A.K., Lobaton S.D.
    Immunogenetics 56:585-596(2004) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE.
    Strain: BN/CrlBRImported.
    Tissue: ThymusImported.
  5. "Genome sequence of the Brown Norway rat yields insights into mammalian evolution."
    Rat Genome Sequencing Project Consortium
    Gibbs R.A., Weinstock G.M., Metzker M.L., Muzny D.M., Sodergren E.J., Scherer S., Scott G., Steffen D., Worley K.C., Burch P.E., Okwuonu G., Hines S., Lewis L., Deramo C., Delgado O., Dugan-Rocha S., Miner G., Morgan M.
    , Hawes A., Gill R., Holt R.A., Adams M.D., Amanatides P.G., Baden-Tillson H., Barnstead M., Chin S., Evans C.A., Ferriera S., Fosler C., Glodek A., Gu Z., Jennings D., Kraft C.L., Nguyen T., Pfannkoch C.M., Sitter C., Sutton G.G., Venter J.C., Woodage T., Smith D., Lee H.-M., Gustafson E., Cahill P., Kana A., Doucette-Stamm L., Weinstock K., Fechtel K., Weiss R.B., Dunn D.M., Green E.D., Blakesley R.W., Bouffard G.G., De Jong P.J., Osoegawa K., Zhu B., Marra M., Schein J., Bosdet I., Fjell C., Jones S., Krzywinski M., Mathewson C., Siddiqui A., Wye N., McPherson J., Zhao S., Fraser C.M., Shetty J., Shatsman S., Geer K., Chen Y., Abramzon S., Nierman W.C., Havlak P.H., Chen R., Durbin K.J., Egan A., Ren Y., Song X.-Z., Li B., Liu Y., Qin X., Cawley S., Cooney A.J., D'Souza L.M., Martin K., Wu J.Q., Gonzalez-Garay M.L., Jackson A.R., Kalafus K.J., McLeod M.P., Milosavljevic A., Virk D., Volkov A., Wheeler D.A., Zhang Z., Bailey J.A., Eichler E.E., Tuzun E., Birney E., Mongin E., Ureta-Vidal A., Woodwark C., Zdobnov E., Bork P., Suyama M., Torrents D., Alexandersson M., Trask B.J., Young J.M., Huang H., Wang H., Xing H., Daniels S., Gietzen D., Schmidt J., Stevens K., Vitt U., Wingrove J., Camara F., Mar Alba M., Abril J.F., Guigo R., Smit A., Dubchak I., Rubin E.M., Couronne O., Poliakov A., Huebner N., Ganten D., Goesele C., Hummel O., Kreitler T., Lee Y.-A., Monti J., Schulz H., Zimdahl H., Himmelbauer H., Lehrach H., Jacob H.J., Bromberg S., Gullings-Handley J., Jensen-Seaman M.I., Kwitek A.E., Lazar J., Pasko D., Tonellato P.J., Twigger S., Ponting C.P., Duarte J.M., Rice S., Goodstadt L., Beatson S.A., Emes R.D., Winter E.E., Webber C., Brandt P., Nyakatura G., Adetobi M., Chiaromonte F., Elnitski L., Eswara P., Hardison R.C., Hou M., Kolbe D., Makova K., Miller W., Nekrutenko A., Riemer C., Schwartz S., Taylor J., Yang S., Zhang Y., Lindpaintner K., Andrews T.D., Caccamo M., Clamp M., Clarke L., Curwen V., Durbin R.M., Eyras E., Searle S.M., Cooper G.M., Batzoglou S., Brudno M., Sidow A., Stone E.A., Payseur B.A., Bourque G., Lopez-Otin C., Puente X.S., Chakrabarti K., Chatterji S., Dewey C., Pachter L., Bray N., Yap V.B., Caspi A., Tesler G., Pevzner P.A., Haussler D., Roskin K.M., Baertsch R., Clawson H., Furey T.S., Hinrichs A.S., Karolchik D., Kent W.J., Rosenbloom K.R., Trumbower H., Weirauch M., Cooper D.N., Stenson P.D., Ma B., Brent M., Arumugam M., Shteynberg D., Copley R.R., Taylor M.S., Riethman H., Mudunuri U., Peterson J., Guyer M., Felsenfeld A., Old S., Mockrin S., Collins F.S.
    Nature 428:493-521(2004) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
    Strain: Brown NorwayImported.
  6. Cited for: NUCLEOTIDE SEQUENCE.
    Strain: BNImported.
  7. Cited for: NUCLEOTIDE SEQUENCE.
    Strain: BNImported.
  8. Ensembl
    Submitted (FEB-2012) to UniProtKB
    Cited for: IDENTIFICATION.
    Strain: Brown NorwayImported.
  9. Cited for: NUCLEOTIDE SEQUENCE.
    Strain: DA.1HImported.

Entry informationi

Entry nameiQ9TQA6_RAT
AccessioniPrimary (citable) accession number: Q9TQA6
Entry historyi
Integrated into UniProtKB/TrEMBL: May 1, 2000
Last sequence update: May 1, 2000
Last modified: March 4, 2015
This is version 112 of the entry and version 1 of the sequence. [Complete history]
Entry statusiUnreviewed (UniProtKB/TrEMBL)

Miscellaneousi

Keywords - Technical termi

Complete proteome, Reference proteomeImported

External Data

Dasty 3

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 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.