P13765 (DOB_HUMAN) Reviewed, UniProtKB/Swiss-Prot

Names and origin

Protein names

Recommended name:
HLA class II histocompatibility antigen, DO beta chain

Alternative name(s):
MHC class II antigen DOB

Gene names

Name:

HLA-DOB

Organism

Homo sapiens (Human) [Reference proteome]

Taxonomic identifier

9606 [NCBI]

Taxonomic lineage

cellular organisms › Eukaryota › Opisthokonta › Metazoa › Eumetazoa › Bilateria › Deuterostomia › Chordata › Craniata › Vertebrata › Gnathostomata › Teleostomi › Euteleostomi › Sarcopterygii › Tetrapoda › Amniota › Mammalia › Theria › Eutheria › Euarchontoglires › Primates › Haplorrhini › Simiiformes › Catarrhini › Hominoidea › Hominidae › Homininae › Homo

Protein attributes

Sequence length	273 AA.
Sequence status	Complete.
Sequence processing	The displayed sequence is further processed into a mature form.
Protein existence	Evidence 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.

Ontologies

Keywords
Biological process	Immunity
Cellular component	Endosome Lysosome MHC II Membrane
Coding sequence diversity	Polymorphism
Domain	Signal Transmembrane Transmembrane helix
PTM	Disulfide bond Glycoprotein
Technical term	3D-structure Complete proteome Reference proteome
Gene Ontology (GO)
Biological_process	antigen processing and presentation of exogenous peptide antigen via MHC class II Traceable author statement. Source: Reactome immune response Inferred from electronic annotation. Source: InterPro
Cellular_component	MHC class II protein complex Inferred from electronic annotation. Source: UniProtKB-KW endosome membrane Inferred from electronic annotation. Source: UniProtKB-SubCell integral to membrane Inferred from electronic annotation. Source: UniProtKB-KW lysosomal membrane Traceable author statement. Source: Reactome
Molecular_function	MHC class II receptor activity Traceable author statement Ref.1. Source: UniProtKB
Complete GO annotation...

Sequence annotation (Features)

Feature key

Position(s)

Length

Description

Graphical view

Feature identifier

Molecule processing

Signal peptide

1 – 26

26

Chain

27 – 273

247

HLA class II histocompatibility antigen, DO beta chain

PRO_0000018963

Regions

Topological domain

27 – 224

198

Extracellular Potential

Transmembrane

225 – 245

21

Helical; Potential

Topological domain

246 – 273

28

Cytoplasmic Potential

Domain

123 – 213

91

Ig-like C1-type

Region

27 – 120

94

Beta-1

Region

121 – 214

94

Beta-2

Region

215 – 224

10

Connecting peptide

Amino acid modifications

Glycosylation

45

1

N-linked (GlcNAc...) Potential

Disulfide bond

41 ↔ 105

By similarity

Disulfide bond

143 ↔ 199

By similarity

Natural variations

Natural variant

18

1

R → Q in allele DOB*01:02.
Corresponds to variant rs2071554 [ dbSNP | Ensembl ].

VAR_016743

Natural variant

210

1

V → I. Ref.4 Ref.5
Corresponds to variant rs11575907 [ dbSNP | Ensembl ].

VAR_050363

Natural variant

234

1

L → F in allele DOB*01:04.
Corresponds to variant rs2070121 [ dbSNP | Ensembl ].

VAR_016745

Natural variant

244

1

V → I in allele DOB*01:03.
Corresponds to variant rs2621330 [ dbSNP | Ensembl ].

VAR_016744

Secondary structure

1

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273

Helix Strand Turn

Details...

Beta strand

34 – 44

11

Turn

45 – 48

4

Beta strand

49 – 58

10

Beta strand

61 – 67

7

Turn

68 – 70

3

Beta strand

72 – 75

4

Helix

78 – 80

3

Helix

81 – 89

9

Helix

91 – 103

13

Helix

105 – 112

8

Helix

113 – 115

3

Turn

116 – 118

3

Beta strand

124 – 131

8

Beta strand

139 – 151

13

Beta strand

154 – 159

6

Beta strand

166 – 169

4

Beta strand

177 – 179

3

Beta strand

181 – 189

9

Beta strand

197 – 202

6

Beta strand

210 – 214

5

Sequences

	Sequence		Length	Mass (Da)
	P13765 [UniParc]. Last modified January 1, 1990. Version 1. Checksum: C06A1360DCC4AD26	FASTA	273	30,822
	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

References

	« Hide 'large scale' referencesShow '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. , 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.

IPI

IPI00010410.

PIR

A24669. S27335.

RefSeq

NP_002111.1. NM_002120.3.

UniGene

Hs.1802.

3D structure databases

PDBe
RCSB PDB
PDBj

Entry	Method	Resolution (Å)	Chain	Positions	PDBsum
4I0P	X-ray	3.20	D/H	30-218	[»]

ProteinModelPortal

P13765.

ModBase

Search...

Protein-protein interaction databases

MINT

MINT-6630170.

STRING

9606.ENSP00000395780.

PTM databases

PhosphoSite

P13765.

Polymorphism databases

DMDM

122261.

Proteomic databases

PaxDb

P13765.

PRIDE

P13765.

Protocols and materials databases

DNASU

3112.

StructuralBiologyKnowledgebase

Search...

Genome annotation databases

Ensembl

ENST00000426644; ENSP00000395780; ENSG00000243612.
ENST00000438763; ENSP00000390020; ENSG00000241106.
ENST00000447178; ENSP00000405108; ENSG00000241386.
ENST00000454286; ENSP00000397268; ENSG00000243496.
ENST00000454969; ENSP00000410390; ENSG00000241910.
ENST00000456406; ENSP00000394783; ENSG00000239457.

GeneID

3112.

KEGG

hsa:3112.

UCSC

uc003oca.3. human.

Organism-specific databases

CTD

3112.

GeneCards

GC06M032780.

H-InvDB

HIX0207728.
HIX0207758.

HGNC

HGNC:4937. HLA-DOB.

HPA

HPA013846.

MIM

142920. gene.
600629. gene.

neXtProt

NX_P13765.

PharmGKB

PA35061.

GenAtlas

Search...

Phylogenomic databases

eggNOG

NOG45668.

HOGENOM

HOG000100909.

HOVERGEN

HBG012730.

InParanoid

P13765.

KO

K06752.

OMA

DAERWNN.

OrthoDB

EOG461454.

PhylomeDB

P13765.

Enzyme and pathway databases

Reactome

REACT_6900. Immune System.

Gene expression databases

ArrayExpress

P13765.

Bgee

P13765.

CleanEx

HS_HLA-DOB.

Genevestigator

P13765.

GermOnline

ENSG00000204273. Homo sapiens.

Family and domain databases

Gene3D

2.60.40.10. 1 hit.
3.10.320.10. 1 hit.

InterPro

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]

Pfam

PF07654. C1-set. 1 hit.
PF00969. MHC_II_beta. 1 hit.
[Graphical view]

ProDom

PD000328. MHC_II_b_N. 1 hit.
[Graphical view] [Entries sharing at least one domain]

SMART

SM00407. IGc1. 1 hit.
SM00921. MHC_II_beta. 1 hit.
[Graphical view]

SUPFAM

SSF54452. MHC_I/II-like_Ag-recog. 1 hit.

PROSITE

PS50835. IG_LIKE. 1 hit.
PS00290. IG_MHC. 1 hit.
[Graphical view]

ProtoNet

Search...

Other

GenomeRNAi

3112.

NextBio

12349.

SOURCE

Search...

Entry information

Entry name

DOB_HUMAN

Accession

Primary (citable) accession number: P13765
Secondary accession number(s): B0V0Y0 , Q29746, Q29825, Q6FHC2

Entry history

Integrated into UniProtKB/Swiss-Prot:	January 1, 1990
Last sequence update:	January 1, 1990
Last modified:	May 29, 2013
This is version 134 of the entry and version 1 of the sequence. [Complete history]

Entry status

Reviewed (UniProtKB/Swiss-Prot)

Annotation program

Chordata Protein Annotation Program

Disclaimer

Any 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.