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Q9TQA6

- Q9TQA6_RAT

UniProt

Q9TQA6 - Q9TQA6_RAT

Protein
Submitted name:

Class II MHC RT1.D(N) beta chain

Gene

RT1-Db1

Organism
Rattus norvegicus (Rat)
Status
Unreviewed - Annotation score: 3 out of 5- Experimental evidence at transcript leveli
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    • History
      Entry version 107 (01 Oct 2014)
      Sequence version 1 (01 May 2000)
      Previous versions | rss
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    Functioni

    GO - Biological processi

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

    Keywords - Biological processi

    Immunity

    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)Imported
    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

    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

    GeneTreeiENSGT00560000076676.
    HOVERGENiHBG012730.
    InParanoidiQ9TQA6.
    KOiK06752.
    OMAiNGMERVR.
    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

    MVWLARDSCV AAVILLLTVL SPPVALVRDP TPRFLEQYKS ECYFYNGTQR    50
    VRLLVRYIYN REEYTRFDSD VGEFRAVTEL GRRDTEYYNK QKEYIERERA 100
    AVDTICRHNY EISDRFLVPR TVEPKVTVYP SKTQPLKHHN LLVCSVSDFY 150
    PGSVEVRWFR NGEEEKDGLV STGLIPNGDW TFQLLVMLEM VPQGGEVYTC 200
    QVEHPSLTSP VRVEWKAQST SAQNKKMSGV GGIVLGLLFL GAGLFVYFRN 250
    QKGQSGLQPT GLLN 264
    Length:264
    Mass (Da):30,202
    Last modified:May 1, 2000 - v1
    Checksum:iC57FCD5C5CBF0FB3
    GO

    Sequence databases

    Select the link destinations:
    EMBL
    GenBank
    DDBJ
    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:
    EMBL
    GenBank
    DDBJ
    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 .
    RefSeqi NP_001008884.1. NM_001008884.2.
    UniGenei Rn.33311.

    3D structure databases

    ModBasei Search...
    MobiDBi Search...

    Protocols and materials databases

    Structural Biology Knowledgebase Search...

    Genome annotation databases

    Ensembli ENSRNOT00000000522 ; ENSRNOP00000000522 ; ENSRNOG00000033215 .
    GeneIDi 294270.
    KEGGi rno:294270.

    Organism-specific databases

    CTDi 294270.
    RGDi 1593282. RT1-Db1.

    Phylogenomic databases

    GeneTreei ENSGT00560000076676.
    HOVERGENi HBG012730.
    InParanoidi Q9TQA6.
    KOi K06752.
    OMAi NGMERVR.
    OrthoDBi EOG7PS1GV.
    TreeFami TF336626.

    Miscellaneous databases

    NextBioi 637862.

    Gene expression databases

    Genevestigatori Q9TQA6.

    Family and domain databases

    Gene3Di 2.60.40.10. 1 hit.
    3.10.320.10. 1 hit.
    InterProi IPR007110. 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 ]
    Pfami PF07654. C1-set. 1 hit.
    PF00969. MHC_II_beta. 1 hit.
    [Graphical view ]
    ProDomi PD000328. MHC_II_b_N. 1 hit.
    [Graphical view ] [Entries sharing at least one domain ]
    SMARTi SM00407. IGc1. 1 hit.
    SM00921. MHC_II_beta. 1 hit.
    [Graphical view ]
    SUPFAMi SSF54452. SSF54452. 1 hit.
    PROSITEi PS50835. IG_LIKE. 1 hit.
    PS00290. IG_MHC. 1 hit.
    [Graphical view ]
    ProtoNeti Search...

    Publicationsi

    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: October 1, 2014
    This is version 107 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