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Protein

HLA class II histocompatibility antigen, DO beta chain

Gene

HLA-DOB

Organism
Homo sapiens (Human)
Status
Reviewed-Annotation score: Annotation score: 5 out of 5-Experimental evidence at protein leveli

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

  • MHC class II protein complex binding Source: UniProtKB
  • MHC class II receptor activity Source: UniProtKB

GO - Biological processi

Complete GO annotation...

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 Componentsi: Chromosome 6, Unplaced

Organism-specific databases

HGNCiHGNC:4937. HLA-DOB.

Subcellular locationi

Topology

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Topological domaini27 – 224198ExtracellularSequence AnalysisAdd
BLAST
Transmembranei225 – 24521HelicalSequence AnalysisAdd
BLAST
Topological domaini246 – 27328CytoplasmicSequence AnalysisAdd
BLAST

GO - Cellular componenti

  • endosome membrane Source: UniProtKB-SubCell
  • integral component of membrane Source: UniProtKB-KW
  • lysosomal membrane Source: Reactome
  • lysosome Source: MGI
  • MHC class II protein complex Source: UniProtKB
Complete GO annotation...

Keywords - Cellular componenti

Endosome, Lysosome, Membrane, MHC II

Pathology & Biotechi

Organism-specific databases

PharmGKBiPA35061.

Polymorphism and mutation databases

BioMutaiHLA-DOB.
DMDMi122261.

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.
ExpressionAtlasiP13765. baseline.
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. 3 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 – 4411Combined sources
Turni45 – 484Combined sources
Beta strandi49 – 5810Combined sources
Beta strandi61 – 677Combined sources
Turni68 – 703Combined sources
Beta strandi72 – 754Combined sources
Helixi78 – 803Combined sources
Helixi81 – 899Combined sources
Helixi91 – 10313Combined sources
Helixi105 – 1128Combined sources
Helixi113 – 1153Combined sources
Turni116 – 1183Combined sources
Beta strandi124 – 1318Combined sources
Beta strandi139 – 15113Combined sources
Beta strandi154 – 1596Combined sources
Beta strandi166 – 1694Combined sources
Beta strandi177 – 1793Combined sources
Beta strandi181 – 1899Combined sources
Beta strandi197 – 2026Combined sources
Beta strandi210 – 2145Combined sources

3D structure databases

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

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.
OMAiLWNNRPD.
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

        10         20         30         40         50
MGSGWVPWVV ALLVNLTRLD SSMTQGTDSP EDFVIQAKAD CYFTNGTEKV
60 70 80 90 100
QFVVRFIFNL EEYVRFDSDV GMFVALTKLG QPDAEQWNSR LDLLERSRQA
110 120 130 140 150
VDGVCRHNYR LGAPFTVGRK VQPEVTVYPE RTPLLHQHNL LHCSVTGFYP
160 170 180 190 200
GDIKIKWFLN GQEERAGVMS TGPIRNGDWT FQTVVMLEMT PELGHVYTCL
210 220 230 240 250
VDHSSLLSPV SVEWRAQSEY SWRKMLSGIA AFLLGLIFLL VGIVIQLRAQ
260 270
KGYVRTQMSG NEVSRAVLLP QSC
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:
EMBLi
GenBanki
DDBJi
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.

Keywords - Coding sequence diversityi

Polymorphism

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
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.

3D structure databases

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

Protein-protein interaction databases

BioGridi109357. 3 interactions.
DIPiDIP-60117N.
MINTiMINT-6630170.
STRINGi9606.ENSP00000395780.

PTM databases

PhosphoSiteiP13765.

Polymorphism and mutation databases

BioMutaiHLA-DOB.
DMDMi122261.

Proteomic databases

MaxQBiP13765.
PaxDbiP13765.
PRIDEiP13765.

Protocols and materials databases

DNASUi3112.
Structural Biology KnowledgebaseSearch...

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.

Organism-specific databases

CTDi3112.
GeneCardsiGC06M032780.
GC06Mi32764.
GC06Mj32702.
GC06Mk32758.
GC06Mm32814.
GC06Mo32870.
H-InvDBHIX0207728.
HIX0207758.
HGNCiHGNC:4937. HLA-DOB.
HPAiHPA013846.
MIMi142920. gene.
600629. gene.
neXtProtiNX_P13765.
PharmGKBiPA35061.
GenAtlasiSearch...

Phylogenomic databases

eggNOGiNOG45668.
HOGENOMiHOG000100909.
HOVERGENiHBG012730.
InParanoidiP13765.
KOiK06752.
OMAiLWNNRPD.
PhylomeDBiP13765.
TreeFamiTF336626.

Enzyme and pathway databases

ReactomeiREACT_121399. MHC class II antigen presentation.

Miscellaneous databases

ChiTaRSiHLA-DOB. human.
GeneWikiiHLA-DOB.
GenomeRNAii3112.
NextBioi12349.
PROiP13765.
SOURCEiSearch...

Gene expression databases

BgeeiP13765.
CleanExiHS_HLA-DOB.
ExpressionAtlasiP13765. baseline.
GenevestigatoriP13765.

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. "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: May 27, 2015
This is version 151 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

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.