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P13765

- DOB_HUMAN

UniProt

P13765 - DOB_HUMAN

Protein

HLA class II histocompatibility antigen, DO beta chain

Gene

HLA-DOB

Organism
Homo sapiens (Human)
Status
Reviewed - Annotation score: 5 out of 5- Experimental evidence at protein leveli
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    • History
      Entry version 146 (01 Oct 2014)
      Sequence version 1 (01 Jan 1990)
      Previous versions | rss
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    Functioni

    Important modulator in the HLA class II restricted antigen presentation pathway by interaction with the HLA-DM molecule in B-cells. Modifies peptide exchange activity of HLA-DM.

    GO - Molecular functioni

    1. MHC class II protein complex binding Source: UniProt
    2. MHC class II receptor activity Source: UniProtKB

    GO - Biological processi

    1. antigen processing and presentation of exogenous peptide antigen via MHC class II Source: Reactome
    2. immune response Source: InterPro
    3. negative regulation of antigen processing and presentation of peptide antigen via MHC class II Source: UniProt
    4. signal transduction Source: GOC

    Keywords - Biological processi

    Immunity

    Enzyme and pathway databases

    ReactomeiREACT_121399. MHC class II antigen presentation.

    Names & Taxonomyi

    Protein namesi
    Recommended name:
    HLA class II histocompatibility antigen, DO beta chain
    Alternative name(s):
    MHC class II antigen DOB
    Gene namesi
    Name:HLA-DOB
    OrganismiHomo sapiens (Human)
    Taxonomic identifieri9606 [NCBI]
    Taxonomic lineageiEukaryotaMetazoaChordataCraniataVertebrataEuteleostomiMammaliaEutheriaEuarchontogliresPrimatesHaplorrhiniCatarrhiniHominidaeHomo
    ProteomesiUP000005640: Chromosome 6

    Organism-specific databases

    HGNCiHGNC:4937. HLA-DOB.

    Subcellular locationi

    Endosome membrane; Single-pass type I membrane protein. Lysosome membrane; Single-pass type I membrane protein
    Note: Complexes with HLA-DM molecule during intracellular transport and in endosomal/lysosomal compartments. Heterotetramerization is necessary to exit the ER.

    GO - Cellular componenti

    1. endosome membrane Source: UniProtKB-SubCell
    2. integral component of membrane Source: UniProtKB-KW
    3. lysosomal membrane Source: Reactome
    4. lysosome Source: MGI
    5. MHC class II protein complex Source: UniProt

    Keywords - Cellular componenti

    Endosome, Lysosome, Membrane, MHC II

    Pathology & Biotechi

    Organism-specific databases

    PharmGKBiPA35061.

    PTM / Processingi

    Molecule processing

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Signal peptidei1 – 2626Add
    BLAST
    Chaini27 – 273247HLA class II histocompatibility antigen, DO beta chainPRO_0000018963Add
    BLAST

    Amino acid modifications

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Disulfide bondi41 ↔ 105PROSITE-ProRule annotation
    Glycosylationi45 – 451N-linked (GlcNAc...)Sequence Analysis
    Disulfide bondi143 ↔ 199PROSITE-ProRule annotation

    Keywords - PTMi

    Disulfide bond, Glycoprotein

    Proteomic databases

    MaxQBiP13765.
    PaxDbiP13765.
    PRIDEiP13765.

    PTM databases

    PhosphoSiteiP13765.

    Expressioni

    Gene expression databases

    BgeeiP13765.
    CleanExiHS_HLA-DOB.
    GenevestigatoriP13765.

    Organism-specific databases

    HPAiHPA013846.

    Interactioni

    Subunit structurei

    Heterodimer of an alpha chain (DOA) and a beta chain (DOB). Forms a heterotetrameric complex with an HLA-DM molecule during intracellular transport in endosomal/lysosomal compartments in B-cells.

    Protein-protein interaction databases

    BioGridi109357. 2 interactions.
    DIPiDIP-60117N.
    MINTiMINT-6630170.
    STRINGi9606.ENSP00000395780.

    Structurei

    Secondary structure

    1
    273
    Legend: HelixTurnBeta strand
    Show more details
    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Beta strandi34 – 4411
    Turni45 – 484
    Beta strandi49 – 5810
    Beta strandi61 – 677
    Turni68 – 703
    Beta strandi72 – 754
    Helixi78 – 803
    Helixi81 – 899
    Helixi91 – 10313
    Helixi105 – 1128
    Helixi113 – 1153
    Turni116 – 1183
    Beta strandi124 – 1318
    Beta strandi139 – 15113
    Beta strandi154 – 1596
    Beta strandi166 – 1694
    Beta strandi177 – 1793
    Beta strandi181 – 1899
    Beta strandi197 – 2026
    Beta strandi210 – 2145

    3D structure databases

    Select the link destinations:
    PDBe
    RCSB PDB
    PDBj
    Links Updated
    EntryMethodResolution (Å)ChainPositionsPDBsum
    4I0PX-ray3.20D/H30-218[»]
    ProteinModelPortaliP13765.
    SMRiP13765. Positions 30-218.
    ModBaseiSearch...
    MobiDBiSearch...

    Topological domain

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Topological domaini27 – 224198ExtracellularSequence AnalysisAdd
    BLAST
    Topological domaini246 – 27328CytoplasmicSequence AnalysisAdd
    BLAST

    Transmembrane

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Transmembranei225 – 24521HelicalSequence AnalysisAdd
    BLAST

    Family & Domainsi

    Domains and Repeats

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Domaini123 – 21391Ig-like C1-typeAdd
    BLAST

    Region

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Regioni27 – 12094Beta-1Add
    BLAST
    Regioni121 – 21494Beta-2Add
    BLAST
    Regioni215 – 22410Connecting peptide

    Sequence similaritiesi

    Belongs to the MHC class II family.Curated

    Keywords - Domaini

    Signal, Transmembrane, Transmembrane helix

    Phylogenomic databases

    eggNOGiNOG45668.
    HOGENOMiHOG000100909.
    HOVERGENiHBG012730.
    InParanoidiP13765.
    KOiK06752.
    OMAiDAERWNN.
    PhylomeDBiP13765.
    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.

    P13765-1 [UniParc]FASTAAdd to Basket

    « Hide

    MGSGWVPWVV ALLVNLTRLD SSMTQGTDSP EDFVIQAKAD CYFTNGTEKV    50
    QFVVRFIFNL EEYVRFDSDV GMFVALTKLG QPDAEQWNSR LDLLERSRQA 100
    VDGVCRHNYR LGAPFTVGRK VQPEVTVYPE RTPLLHQHNL LHCSVTGFYP 150
    GDIKIKWFLN GQEERAGVMS TGPIRNGDWT FQTVVMLEMT PELGHVYTCL 200
    VDHSSLLSPV SVEWRAQSEY SWRKMLSGIA AFLLGLIFLL VGIVIQLRAQ 250
    KGYVRTQMSG NEVSRAVLLP QSC 273
    Length:273
    Mass (Da):30,822
    Last modified:January 1, 1990 - v1
    Checksum:iC06A1360DCC4AD26
    GO

    Polymorphismi

    The following alleles of DOB are known: DOB*01:01, DOB*01:02, DOB*01:03 and DOB*01:04. The sequence shown is that of DOB*01:01.

    Natural variant

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Natural varianti18 – 181R → Q in allele DOB*01:02.
    Corresponds to variant rs2071554 [ dbSNP | Ensembl ].
    VAR_016743
    Natural varianti210 – 2101V → I.2 Publications
    Corresponds to variant rs11575907 [ dbSNP | Ensembl ].
    VAR_050363
    Natural varianti234 – 2341L → F in allele DOB*01:04.
    Corresponds to variant rs2070121 [ dbSNP | Ensembl ].
    VAR_016745
    Natural varianti244 – 2441V → I in allele DOB*01:03.
    Corresponds to variant rs2621330 [ dbSNP | Ensembl ].
    VAR_016744

    Sequence databases

    Select the link destinations:
    EMBL
    GenBank
    DDBJ
    Links Updated
    X03066 mRNA. Translation: CAA26870.1.
    M26040 mRNA. Translation: AAA59718.1.
    X66401 Genomic DNA. Translation: CAA47028.1.
    CR541832 mRNA. Translation: CAG46631.1.
    CR788227 Genomic DNA. Translation: CAQ08588.1.
    BC006097 mRNA. Translation: AAH06097.1.
    L29472 Genomic DNA. Translation: AAA59717.1.
    X87344 Genomic DNA. Translation: CAA60789.1.
    AB035252 Genomic DNA. No translation available.
    CCDSiCCDS4754.1.
    PIRiS27335. A24669.
    RefSeqiNP_002111.1. NM_002120.3.
    UniGeneiHs.1802.

    Genome annotation databases

    EnsembliENST00000426644; ENSP00000395780; ENSG00000243612.
    ENST00000438763; ENSP00000390020; ENSG00000241106.
    ENST00000447178; ENSP00000405108; ENSG00000241386.
    ENST00000454286; ENSP00000397268; ENSG00000243496.
    ENST00000454969; ENSP00000410390; ENSG00000241910.
    ENST00000456406; ENSP00000394783; ENSG00000239457.
    GeneIDi3112.
    KEGGihsa:3112.
    UCSCiuc003oca.3. human.

    Polymorphism databases

    DMDMi122261.

    Keywords - Coding sequence diversityi

    Polymorphism

    Cross-referencesi

    Sequence databases

    Select the link destinations:
    EMBL
    GenBank
    DDBJ
    Links Updated
    X03066 mRNA. Translation: CAA26870.1 .
    M26040 mRNA. Translation: AAA59718.1 .
    X66401 Genomic DNA. Translation: CAA47028.1 .
    CR541832 mRNA. Translation: CAG46631.1 .
    CR788227 Genomic DNA. Translation: CAQ08588.1 .
    BC006097 mRNA. Translation: AAH06097.1 .
    L29472 Genomic DNA. Translation: AAA59717.1 .
    X87344 Genomic DNA. Translation: CAA60789.1 .
    AB035252 Genomic DNA. No translation available.
    CCDSi CCDS4754.1.
    PIRi S27335. A24669.
    RefSeqi NP_002111.1. NM_002120.3.
    UniGenei Hs.1802.

    3D structure databases

    Select the link destinations:
    PDBe
    RCSB PDB
    PDBj
    Links Updated
    Entry Method Resolution (Å) Chain Positions PDBsum
    4I0P X-ray 3.20 D/H 30-218 [» ]
    ProteinModelPortali P13765.
    SMRi P13765. Positions 30-218.
    ModBasei Search...
    MobiDBi Search...

    Protein-protein interaction databases

    BioGridi 109357. 2 interactions.
    DIPi DIP-60117N.
    MINTi MINT-6630170.
    STRINGi 9606.ENSP00000395780.

    PTM databases

    PhosphoSitei P13765.

    Polymorphism databases

    DMDMi 122261.

    Proteomic databases

    MaxQBi P13765.
    PaxDbi P13765.
    PRIDEi P13765.

    Protocols and materials databases

    DNASUi 3112.
    Structural Biology Knowledgebase Search...

    Genome annotation databases

    Ensembli ENST00000426644 ; ENSP00000395780 ; ENSG00000243612 .
    ENST00000438763 ; ENSP00000390020 ; ENSG00000241106 .
    ENST00000447178 ; ENSP00000405108 ; ENSG00000241386 .
    ENST00000454286 ; ENSP00000397268 ; ENSG00000243496 .
    ENST00000454969 ; ENSP00000410390 ; ENSG00000241910 .
    ENST00000456406 ; ENSP00000394783 ; ENSG00000239457 .
    GeneIDi 3112.
    KEGGi hsa:3112.
    UCSCi uc003oca.3. human.

    Organism-specific databases

    CTDi 3112.
    GeneCardsi GC06M032780.
    GC06Mi32764.
    GC06Mj32702.
    GC06Mk32758.
    GC06Mm32814.
    GC06Mo32870.
    H-InvDB HIX0207728.
    HIX0207758.
    HGNCi HGNC:4937. HLA-DOB.
    HPAi HPA013846.
    MIMi 142920. gene.
    600629. gene.
    neXtProti NX_P13765.
    PharmGKBi PA35061.
    GenAtlasi Search...

    Phylogenomic databases

    eggNOGi NOG45668.
    HOGENOMi HOG000100909.
    HOVERGENi HBG012730.
    InParanoidi P13765.
    KOi K06752.
    OMAi DAERWNN.
    PhylomeDBi P13765.
    TreeFami TF336626.

    Enzyme and pathway databases

    Reactomei REACT_121399. MHC class II antigen presentation.

    Miscellaneous databases

    GeneWikii HLA-DOB.
    GenomeRNAii 3112.
    NextBioi 12349.
    PROi P13765.
    SOURCEi Search...

    Gene expression databases

    Bgeei P13765.
    CleanExi HS_HLA-DOB.
    Genevestigatori P13765.

    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. "DO beta: a new beta chain gene in HLA-D with a distinct regulation of expression."
      Tonnelle C., Demars R., Long E.O.
      EMBO J. 4:2839-2847(1985) [PubMed] [Europe PMC] [Abstract]
      Cited for: NUCLEOTIDE SEQUENCE [MRNA] (ALLELE DOB*01:01).
    2. "Human class II DNA and DOB genes display low sequence variability."
      Jonsson A.-K., Rask L.
      Immunogenetics 29:411-413(1989) [PubMed] [Europe PMC] [Abstract]
      Cited for: NUCLEOTIDE SEQUENCE [MRNA] (ALLELE DOB*01:01).
    3. "DNA sequence analysis of 66 kb of the human MHC class II region encoding a cluster of genes for antigen processing."
      Beck S., Kelly A., Radley E., Khurshid F., Alderton R.P., Trowsdale J.
      J. Mol. Biol. 228:433-441(1992) [PubMed] [Europe PMC] [Abstract]
      Cited for: NUCLEOTIDE SEQUENCE [GENOMIC DNA] (ALLELE DOB*01:01).
    4. "Cloning of human full open reading frames in Gateway(TM) system entry vector (pDONR201)."
      Ebert L., Schick M., Neubert P., Schatten R., Henze S., Korn B.
      Submitted (JUN-2004) to the EMBL/GenBank/DDBJ databases
      Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA], VARIANT ILE-210.
    5. "The DNA sequence and analysis of human chromosome 6."
      Mungall A.J., Palmer S.A., Sims S.K., Edwards C.A., Ashurst J.L., Wilming L., Jones M.C., Horton R., Hunt S.E., Scott C.E., Gilbert J.G.R., Clamp M.E., Bethel G., Milne S., Ainscough R., Almeida J.P., Ambrose K.D., Andrews T.D.
      , Ashwell R.I.S., Babbage A.K., Bagguley C.L., Bailey J., Banerjee R., Barker D.J., Barlow K.F., Bates K., Beare D.M., Beasley H., Beasley O., Bird C.P., Blakey S.E., Bray-Allen S., Brook J., Brown A.J., Brown J.Y., Burford D.C., Burrill W., Burton J., Carder C., Carter N.P., Chapman J.C., Clark S.Y., Clark G., Clee C.M., Clegg S., Cobley V., Collier R.E., Collins J.E., Colman L.K., Corby N.R., Coville G.J., Culley K.M., Dhami P., Davies J., Dunn M., Earthrowl M.E., Ellington A.E., Evans K.A., Faulkner L., Francis M.D., Frankish A., Frankland J., French L., Garner P., Garnett J., Ghori M.J., Gilby L.M., Gillson C.J., Glithero R.J., Grafham D.V., Grant M., Gribble S., Griffiths C., Griffiths M.N.D., Hall R., Halls K.S., Hammond S., Harley J.L., Hart E.A., Heath P.D., Heathcott R., Holmes S.J., Howden P.J., Howe K.L., Howell G.R., Huckle E., Humphray S.J., Humphries M.D., Hunt A.R., Johnson C.M., Joy A.A., Kay M., Keenan S.J., Kimberley A.M., King A., Laird G.K., Langford C., Lawlor S., Leongamornlert D.A., Leversha M., Lloyd C.R., Lloyd D.M., Loveland J.E., Lovell J., Martin S., Mashreghi-Mohammadi M., Maslen G.L., Matthews L., McCann O.T., McLaren S.J., McLay K., McMurray A., Moore M.J.F., Mullikin J.C., Niblett D., Nickerson T., Novik K.L., Oliver K., Overton-Larty E.K., Parker A., Patel R., Pearce A.V., Peck A.I., Phillimore B.J.C.T., Phillips S., Plumb R.W., Porter K.M., Ramsey Y., Ranby S.A., Rice C.M., Ross M.T., Searle S.M., Sehra H.K., Sheridan E., Skuce C.D., Smith S., Smith M., Spraggon L., Squares S.L., Steward C.A., Sycamore N., Tamlyn-Hall G., Tester J., Theaker A.J., Thomas D.W., Thorpe A., Tracey A., Tromans A., Tubby B., Wall M., Wallis J.M., West A.P., White S.S., Whitehead S.L., Whittaker H., Wild A., Willey D.J., Wilmer T.E., Wood J.M., Wray P.W., Wyatt J.C., Young L., Younger R.M., Bentley D.R., Coulson A., Durbin R.M., Hubbard T., Sulston J.E., Dunham I., Rogers J., Beck S.
      Nature 425:805-811(2003) [PubMed] [Europe PMC] [Abstract]
      Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA], VARIANT ILE-210.
    6. "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] [Europe PMC] [Abstract]
      Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA] (ALLELE DOB*01:01).
      Tissue: B-cell.
    7. "Class II genes of the human major histocompatibility complex. The DO beta gene is a divergent member of the class II beta gene family."
      Servenius B., Rask L., Peterson P.A.
      J. Biol. Chem. 262:8759-8766(1987) [PubMed] [Europe PMC] [Abstract]
      Cited for: NUCLEOTIDE SEQUENCE [GENOMIC DNA] (ALLELE DOB*01:02).
    8. "Evolutionary dynamics of non-coding sequences within the class II region of the human MHC."
      Beck S., Abdulla S., Alderton R.P., Glynne R.J., Gut I.G., Hosking L.K., Jackson A., Kelly A., Newell W.R., Sanseau P., Radley E., Thorpe K.L., Trowsdale J.
      J. Mol. Biol. 255:1-13(1996) [PubMed] [Europe PMC] [Abstract]
      Cited for: NUCLEOTIDE SEQUENCE [GENOMIC DNA] (ALLELE DOB*01:03).
    9. "The HLA-DOB gene displays limited polymorphism with only one amino acid substitution."
      Naruse T.K., Kawata H., Inoko H., Isshiki G., Yamano K., Hino M., Tatsumi N.
      Tissue Antigens 59:512-519(2002) [PubMed] [Europe PMC] [Abstract]
      Cited for: NUCLEOTIDE SEQUENCE [GENOMIC DNA] OF 32-273 (ALLELE DOB*01:04).
    10. Cited for: REVIEW.

    Entry informationi

    Entry nameiDOB_HUMAN
    AccessioniPrimary (citable) accession number: P13765
    Secondary accession number(s): B0V0Y0
    , Q29746, Q29825, Q6FHC2
    Entry historyi
    Integrated into UniProtKB/Swiss-Prot: January 1, 1990
    Last sequence update: January 1, 1990
    Last modified: October 1, 2014
    This is version 146 of the entry and version 1 of the sequence. [Complete history]
    Entry statusiReviewed (UniProtKB/Swiss-Prot)
    Annotation programChordata Protein Annotation Program
    DisclaimerAny 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.

    Miscellaneousi

    Keywords - Technical termi

    3D-structure, Complete proteome, Reference proteome

    Documents

    1. Human chromosome 6
      Human chromosome 6: entries, gene names and cross-references to MIM
    2. Human entries with polymorphisms or disease mutations
      List of human entries with polymorphisms or disease mutations
    3. Human polymorphisms and disease mutations
      Index of human polymorphisms and disease mutations
    4. MIM cross-references
      Online Mendelian Inheritance in Man (MIM) cross-references in UniProtKB/Swiss-Prot
    5. PDB cross-references
      Index of Protein Data Bank (PDB) cross-references
    6. SIMILARITY comments
      Index of protein domains and families

    External Data

    Dasty 3