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P13765 (DOB_HUMAN) Reviewed, UniProtKB/Swiss-Prot

Last modified July 9, 2014. Version 144. Feed History...

Clusters with 100%, 90%, 50% identity | Documents (6) | Third-party data text xml rdf/xml gff fasta
to top of pageNames·Attributes·General annotation·Ontologies·Sequence annotation·Sequences·References·Cross-refs·Entry info·DocumentsCustomize order

Names and origin

Protein namesRecommended name:
HLA class II histocompatibility antigen, DO beta chain
Alternative name(s):
MHC class II antigen DOB
Gene names
Name:HLA-DOB
OrganismHomo sapiens (Human) [Reference proteome]
Taxonomic identifier9606 [NCBI]
Taxonomic lineageEukaryotaMetazoaChordataCraniataVertebrataEuteleostomiMammaliaEutheriaEuarchontogliresPrimatesHaplorrhiniCatarrhiniHominidaeHomo

Protein attributes

Sequence length273 AA.
Sequence statusComplete.
Sequence processingThe displayed sequence is further processed into a mature form.
Protein existenceEvidence at protein level

General annotation (Comments)

Function

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.

Subunit structure

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.

Subcellular location

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.

Polymorphism

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.

Sequence similarities

Belongs to the MHC class II family.

Contains 1 Ig-like C1-type (immunoglobulin-like) domain.

Sequence annotation (Features)

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifier

Molecule processing

Signal peptide1 – 2626
Chain27 – 273247HLA class II histocompatibility antigen, DO beta chain
PRO_0000018963

Regions

Topological domain27 – 224198Extracellular Potential
Transmembrane225 – 24521Helical; Potential
Topological domain246 – 27328Cytoplasmic Potential
Domain123 – 21391Ig-like C1-type
Region27 – 12094Beta-1
Region121 – 21494Beta-2
Region215 – 22410Connecting peptide

Amino acid modifications

Glycosylation451N-linked (GlcNAc...) Potential
Disulfide bond41 ↔ 105 By similarity
Disulfide bond143 ↔ 199 By similarity

Natural variations

Natural variant181R → Q in allele DOB*01:02.
Corresponds to variant rs2071554 [ dbSNP | Ensembl ].
VAR_016743
Natural variant2101V → I. Ref.4 Ref.5
Corresponds to variant rs11575907 [ dbSNP | Ensembl ].
VAR_050363
Natural variant2341L → F in allele DOB*01:04.
Corresponds to variant rs2070121 [ dbSNP | Ensembl ].
VAR_016745
Natural variant2441V → I in allele DOB*01:03.
Corresponds to variant rs2621330 [ dbSNP | Ensembl ].
VAR_016744

Secondary structure

................................... 273
Helix Strand Turn

Details...

Sequences

Sequence LengthMass (Da)Tools
P13765 [UniParc].

Last modified January 1, 1990. Version 1.
Checksum: C06A1360DCC4AD26

FASTA27330,822
        10         20         30         40         50         60 
MGSGWVPWVV ALLVNLTRLD SSMTQGTDSP EDFVIQAKAD CYFTNGTEKV QFVVRFIFNL 

        70         80         90        100        110        120 
EEYVRFDSDV GMFVALTKLG QPDAEQWNSR LDLLERSRQA VDGVCRHNYR LGAPFTVGRK 

       130        140        150        160        170        180 
VQPEVTVYPE RTPLLHQHNL LHCSVTGFYP GDIKIKWFLN GQEERAGVMS TGPIRNGDWT 

       190        200        210        220        230        240 
FQTVVMLEMT PELGHVYTCL VDHSSLLSPV SVEWRAQSEY SWRKMLSGIA AFLLGLIFLL 

       250        260        270 
VGIVIQLRAQ KGYVRTQMSG NEVSRAVLLP QSC 

« Hide

References

« Hide 'large scale' references
[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. expand/collapse author list , 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]"Nonclassical MHC class II molecules."
Alfonso C., Karlsson L.
Annu. Rev. Immunol. 18:113-142(2000) [PubMed] [Europe PMC] [Abstract]
Cited for: REVIEW.
+Additional computationally mapped references.

Cross-references

Sequence databases

EMBL
GenBank
DDBJ
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.
CCDSCCDS4754.1.
PIRA24669. S27335.
RefSeqNP_002111.1. NM_002120.3.
UniGeneHs.1802.

3D structure databases

PDBe
RCSB-PDB
PDBj
EntryMethodResolution (Å)ChainPositionsPDBsum
4I0PX-ray3.20D/H30-218[»]
ProteinModelPortalP13765.
SMRP13765. Positions 30-218.
ModBaseSearch...
MobiDBSearch...

Protein-protein interaction databases

BioGrid109357. 2 interactions.
DIPDIP-60117N.
MINTMINT-6630170.
STRING9606.ENSP00000395780.

PTM databases

PhosphoSiteP13765.

Polymorphism databases

DMDM122261.

Proteomic databases

MaxQBP13765.
PaxDbP13765.
PRIDEP13765.

Protocols and materials databases

DNASU3112.
StructuralBiologyKnowledgebaseSearch...

Genome annotation databases

EnsemblENST00000426644; ENSP00000395780; ENSG00000243612.
ENST00000438763; ENSP00000390020; ENSG00000241106.
ENST00000447178; ENSP00000405108; ENSG00000241386.
ENST00000454286; ENSP00000397268; ENSG00000243496.
ENST00000454969; ENSP00000410390; ENSG00000241910.
ENST00000456406; ENSP00000394783; ENSG00000239457.
GeneID3112.
KEGGhsa:3112.
UCSCuc003oca.3. human.

Organism-specific databases

CTD3112.
GeneCardsGC06M032780.
GC06Mi32764.
GC06Mj32702.
GC06Mk32758.
GC06Mm32814.
GC06Mo32870.
H-InvDBHIX0207728.
HIX0207758.
HGNCHGNC:4937. HLA-DOB.
HPAHPA013846.
MIM142920. gene.
600629. gene.
neXtProtNX_P13765.
PharmGKBPA35061.
GenAtlasSearch...

Phylogenomic databases

eggNOGNOG45668.
HOGENOMHOG000100909.
HOVERGENHBG012730.
InParanoidP13765.
KOK06752.
OMADAERWNN.
PhylomeDBP13765.
TreeFamTF336626.

Enzyme and pathway databases

ReactomeREACT_6900. Immune System.

Gene expression databases

BgeeP13765.
CleanExHS_HLA-DOB.
GenevestigatorP13765.

Family and domain databases

Gene3D2.60.40.10. 1 hit.
3.10.320.10. 1 hit.
InterProIPR007110. 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]
PfamPF07654. C1-set. 1 hit.
PF00969. MHC_II_beta. 1 hit.
[Graphical view]
ProDomPD000328. MHC_II_b_N. 1 hit.
[Graphical view] [Entries sharing at least one domain]
SMARTSM00407. IGc1. 1 hit.
SM00921. MHC_II_beta. 1 hit.
[Graphical view]
SUPFAMSSF54452. SSF54452. 1 hit.
PROSITEPS50835. IG_LIKE. 1 hit.
PS00290. IG_MHC. 1 hit.
[Graphical view]
ProtoNetSearch...

Other

GeneWikiHLA-DOB.
GenomeRNAi3112.
NextBio12349.
PROP13765.
SOURCESearch...

Entry information

Entry nameDOB_HUMAN
AccessionPrimary (citable) accession number: P13765
Secondary accession number(s): B0V0Y0 expand/collapse secondary AC list , Q29746, Q29825, Q6FHC2
Entry history
Integrated into UniProtKB/Swiss-Prot: January 1, 1990
Last sequence update: January 1, 1990
Last modified: July 9, 2014
This is version 144 of the entry and version 1 of the sequence. [Complete history]
Entry statusReviewed (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.

Relevant documents

SIMILARITY comments

Index of protein domains and families

PDB cross-references

Index of Protein Data Bank (PDB) cross-references

MIM cross-references

Online Mendelian Inheritance in Man (MIM) cross-references in UniProtKB/Swiss-Prot

Human polymorphisms and disease mutations

Index of human polymorphisms and disease mutations

Human entries with polymorphisms or disease mutations

List of human entries with polymorphisms or disease mutations

Human chromosome 6

Human chromosome 6: entries, gene names and cross-references to MIM