Human Gene HLA-DPB1 (uc021zqs.1) Description and Page Index
  Description: Homo sapiens major histocompatibility complex, class II, DP beta 1 (HLA-DPB1), mRNA.
RefSeq Summary (NM_002121): HLA-DPB belongs to the HLA class II beta chain paralogues. This class II molecule is a heterodimer consisting of an alpha (DPA) and a beta chain (DPB), both anchored in the membrane. It plays a central role in the immune system by presenting peptides derived from extracellular proteins. Class II molecules are expressed in antigen presenting cells (APC: B lymphocytes, dendritic cells, macrophages). The beta chain is approximately 26-28 kDa and its gene contains 6 exons. Exon one encodes the leader peptide, exons 2 and 3 encode the two extracellular domains, exon 4 encodes the transmembrane domain and exon 5 encodes the cytoplasmic tail. Within the DP molecule both the alpha chain and the beta chain contain the polymorphisms specifying the peptide binding specificities, resulting in up to 4 different molecules. [provided by RefSeq, Jul 2008]. Sequence Note: This RefSeq record was created from transcript and genomic sequence data to make the sequence consistent with the reference genome assembly. The genomic coordinates used for the transcript record were based on transcript alignments. Publication Note: This RefSeq record includes a subset of the publications that are available for this gene. Please see the Gene record to access additional publications. ##Evidence-Data-START## Transcript exon combination :: M83664.1, BC013184.1 [ECO:0000332] RNAseq introns :: single sample supports all introns ERS025081, ERS025082 [ECO:0000348] ##Evidence-Data-END##
Transcript (Including UTRs)
   Position: chr6_mann_hap4:4,501,243-4,554,476 Size: 53,234 Total Exon Count: 6 Strand: +
Coding Region
   Position: chr6_mann_hap4:4,501,362-4,511,561 Size: 10,200 Coding Exon Count: 5 

Page IndexSequence and LinksUniProtKB CommentsGenetic AssociationsCTDMicroarray
RNA StructureProtein StructureOther SpeciesmRNA DescriptionsPathwaysOther Names
Model InformationMethods
Data last updated: 2013-06-14

+  Sequence and Links to Tools and Databases
  Press "+" in the title bar above to open this section.

-  Comments and Description Text from UniProtKB
  ID: Q5EP54_HUMAN
DESCRIPTION: SubName: Full=MHC class II antigen;
SIMILARITY: Contains Ig-like C1-type (immunoglobulin-like) domain.

-  Genetic Association Studies of Complex Diseases and Disorders
  Genetic Association Database: HLA-DPB1
CDC HuGE Published Literature: HLA-DPB1
Positive Disease Associations: Asthma , asthma, aspirin-intolerant , asthma; urticaria , atopy , bone marrow transplant , cardiomyopathy , celiac disease , diabetes, type 1 , endometriosis , graft-versus-host disease , hepatitis B , Hepatitis B Vaccines , Hepatitis B, Chronic , leukemia, acute lymphoblastic , leukemia, myeloid , multiple sclerosis , nephropathy in other diseases , pathological myopia , primary biliary cirrhosis , pulmonary hypertension; thrombosis, deep vein; pulmonary thromboembolism , Scleroderma, Systemic , silicosis
Related Studies:
  1. Asthma
    Emiko Noguchi et al. PLoS genetics 2011, Genome-wide association study identifies HLA-DP as a susceptibility gene for pediatric asthma in Asian populations., PLoS genetics. [PubMed 21814517]
  2. asthma, aspirin-intolerant
    Kim, S. H. et al. 2006, Association of TNF-alpha genetic polymorphism with HLA DPB1(*)0301, Clin Exp Allergy 2006 36(10) 1247-53. [PubMed 17014432]
    TNF-alpha promoter polymorphism may significantly increase susceptibility to AIA by gene-to-gene interaction with HLA DPB1*0301.
  3. asthma; urticaria
    Kim, S. H. et al. 2005, The human leucocyte antigen-DRB1*1302-DQB1*0609-DPB1*0201 haplotype may be a strong genetic marker for aspirin-induced urticaria., Clinical and experimental allergy. 2005 Mar;35(3):339-44. [PubMed 15784113]
    These findings suggest that the HLA-DRB1(*)1302-DQB1(*)0609-DPB1(*)0201 may be a strong genetic marker to determine the aspirin-induced urticaria phenotype.
           more ... click here to view the complete list

-  Comparative Toxicogenomics Database (CTD)
  The following chemicals interact with this gene           more ... click here to view the complete list

-  Microarray Expression Data
 
Expression ratio colors:

GNF Expression Atlas 1 Human Data on Affy U95 Chips

      
    
     
      
    
    
Ratios
      
    
     
      
    
    
Absolute
      
      
      
Ratios
      
      
      
Absolute

-  mRNA Secondary Structure of 3' and 5' UTRs
 
RegionFold EnergyBasesEnergy/Base
Display As
5' UTR -19.40119-0.163 Picture PostScript Text
3' UTR -10.1057-0.177 Picture PostScript Text

The RNAfold program from the Vienna RNA Package is used to perform the secondary structure predictions and folding calculations. The estimated folding energy is in kcal/mol. The more negative the energy, the more secondary structure the RNA is likely to have.

-  Protein Domain and Structure Information
  InterPro Domains: Graphical view of domain structure
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

Pfam Domains:
PF00047 - Immunoglobulin domain
PF00969 - Class II histocompatibility antigen, beta domain
PF07654 - Immunoglobulin C1-set domain

SCOP Domains:
48726 - Immunoglobulin
54452 - MHC antigen-recognition domain

ModBase Predicted Comparative 3D Structure on Q5EP54
FrontTopSide
The pictures above may be empty if there is no ModBase structure for the protein. The ModBase structure frequently covers just a fragment of the protein. You may be asked to log onto ModBase the first time you click on the pictures. It is simplest after logging in to just click on the picture again to get to the specific info on that model.

-  Orthologous Genes in Other Species
  Orthologies between human, mouse, and rat are computed by taking the best BLASTP hit, and filtering out non-syntenic hits. For more distant species reciprocal-best BLASTP hits are used. Note that the absence of an ortholog in the table below may reflect incomplete annotations in the other species rather than a true absence of the orthologous gene.
MouseRatZebrafishD. melanogasterC. elegansS. cerevisiae
No orthologNo orthologNo orthologNo orthologNo orthologNo ortholog
      
      
      
      
      

-  Descriptions from all associated GenBank mRNAs
  M57466 - Human MHC class II HLA-DP light chain mRNA, complete cds.
AK291986 - Homo sapiens cDNA FLJ75434 complete cds, highly similar to Homo sapiens major histocompatibility complex, class II, DP beta 1, mRNA.
AK303153 - Homo sapiens cDNA FLJ61008 complete cds, highly similar to HLA class II histocompatibility antigen, DP(W4) beta chain precursor.
AK301322 - Homo sapiens cDNA FLJ57621 complete cds, highly similar to HLA class II histocompatibility antigen, DP(W4) beta chain precursor.
X01426 - Human mRNA for HLA class II antigen SB 2-beta chain.
J03041 - Human HLA DP4 beta-chain mRNA, complete cds.
M83664 - Human MHC class II lymphocyte antigen (HLA-DP) beta chain mRNA, complete cds.
AK313305 - Homo sapiens cDNA, FLJ93818, Homo sapiens major histocompatibility complex, class II, DP beta 1(HLA-DPB1), mRNA.
BC013184 - Homo sapiens major histocompatibility complex, class II, DP beta 1, mRNA (cDNA clone MGC:17212 IMAGE:4341117), complete cds.
AY831403 - Homo sapiens MHC class II antigen (HLA-DPB1) mRNA, HLA-DPB1*1301 allele, complete cds.
AY831402 - Homo sapiens MHC class II antigen (HLA-DPB1) mRNA, HLA-DPB1*0402 allele, complete cds.
AY831401 - Homo sapiens MHC class II antigen (HLA-DPB1) mRNA, HLA-DPB1*1301 new allele, complete cds.
AY804142 - Homo sapiens MHC class II antigen (HLA-DPB1) mRNA, HLA-DPB1-DPB1*1901 allele, complete cds.
AY804132 - Homo sapiens MHC class II antigen (HLA-DPB1) mRNA, HLA-DPB1-DPB1*1901new allele, complete cds.
X03067 - Human mRNA for HLA-D class II antigen DPW2 beta chain.
AY804140 - Homo sapiens MHC class II antigen (HLA-DPB1) mRNA, HLA-DPB1-DPB1*1401 allele, complete cds.
AY804135 - Homo sapiens MHC class II antigen (HLA-DPB1) mRNA, HLA-DPB1-DPB1*030101new allele, complete cds.
AY804139 - Homo sapiens MHC class II antigen (HLA-DPB1) mRNA, HLA-DPB1-DPB1*0901 allele, complete cds.
AY804134 - Homo sapiens MHC class II antigen (HLA-DPB1) mRNA, HLA-DPB1-DPB1*020102 allele, complete cds.
AY804138 - Homo sapiens MHC class II antigen (HLA-DPB1) mRNA, HLA-DPB1-DPB1*0501 allele, complete cds.
AY804137 - Homo sapiens MHC class II antigen (HLA-DPB1) mRNA, HLA-DPB1-DPB1*0402new allele, complete cds.
AY804143 - Homo sapiens MHC class II antigen (HLA-DPB1) mRNA, HLA-DPB1-DPB1*010101 allele, complete cds.
BC007963 - Homo sapiens major histocompatibility complex, class II, DP beta 1, mRNA (cDNA clone MGC:14112 IMAGE:4309717), complete cds.
BC015000 - Homo sapiens major histocompatibility complex, class II, DP beta 1, mRNA (cDNA clone MGC:23556 IMAGE:4851472), complete cds.
AB208978 - Homo sapiens mRNA for HLA class II histocompatibility antigen, DP beta chain precursor variant protein.
AY804141 - Homo sapiens MHC class II antigen (HLA-DPB1) mRNA, HLA-DPB1-DPB1*1501 allele, complete cds.
M28200 - Homo sapiens MHC class II lymphocyte antigen beta-chain (HLA-DPB1a) mRNA, complete cds.
DQ284441 - Homo sapiens clone A6-DPB-9-SP6 MHC class II antigen (HLA-DPB1) mRNA, HLA-DPB1*020102 variant allele, complete cds.
AY804133 - Homo sapiens MHC class II antigen (HLA-DPB1) mRNA, HLA-DPB1-DPB1*010102 allele, complete cds.
AY804136 - Homo sapiens MHC class II antigen (HLA-DPB1) mRNA, HLA-DPB1-DPB1*040101 allele, complete cds.
AB529034 - Synthetic construct DNA, clone: pF1KB3440, Homo sapiens HLA-DPB1 gene for major histocompatibility complex, class II, DP beta 1, without stop codon, in Flexi system.
DQ894229 - Synthetic construct Homo sapiens clone IMAGE:100008689; FLH168842.01L; RZPDo839D1093D major histocompatibility complex, class II, DP beta 1 (HLA-DPB1) gene, encodes complete protein.
DQ891050 - Synthetic construct clone IMAGE:100003680; FLH168846.01X; RZPDo839D1094D major histocompatibility complex, class II, DP beta 1 (HLA-DPB1) gene, encodes complete protein.
CU680546 - Synthetic construct Homo sapiens gateway clone IMAGE:100023440 5' read HLA-DPB1 mRNA.
AY656678 - Homo sapiens MHC class II antigen (HLA-DPB1) mRNA, HLA-DPB1*0202 allele, complete cds.
AY656679 - Homo sapiens MHC class II antigen (HLA-DPB1) mRNA, HLA-DPB1*0501 allele, complete cds.
AY656680 - Homo sapiens MHC class II antigen (HLA-DPB1) mRNA, HLA-DPB1*1301 allele, complete cds.
GQ891549 - Homo sapiens MHC class II antigen (HLA-DPB) mRNA, HLA-DPB1*2101 allele, complete cds.
BT019780 - Homo sapiens major histocompatibility complex, class II, DP beta 1 mRNA, complete cds.
AY831404 - Homo sapiens MHC class II antigen (HLA-DPB1) mRNA, HLA-DPB1*0202 allele, complete cds.
M28202 - Homo sapiens MHC class II lymphocyte antigen beta-chain (HLA-DPB1) mRNA, complete cds.
M21886 - Human MHC class II HLA-DPw4b-beta chain mRNA (DPw4), 3' end.
X00532 - Human mRNA for SB beta-chain (clone pII-beta-7).
K01615 - Human MHC class II HLA-SB-beta-I gene (DR4,w6).
M28201 - Homo sapiens MHC class II lymphocyte antigen beta-chain (HLA-DPB1b) mRNA, 3' end.
K00409 - Human MHC class II HLA-SB-beta chain mRNA (dr4,w6).
L29173 - Homo sapiens MHC class II antigen beta chain mRNA, partial cds.
S66883 - HLA-DP (DPB1*02012)=major histocompatibility complex class II antigen beta chain [human, LCL 45.1, mutant 45.EM19, mRNA Partial Mutant, 171 nt].
E01701 - cDNA sequence coding for beta-chain of human HLA class II.
FR775798 - Homo sapiens partial mRNA for MHC class II antigen (HLA-DPB1 gene), HLA-DPB1*0501_new allele.
HE614584 - Homo sapiens mRNA for MHC class II antigen (HLA-DPB1 gene), allele HLA-DPB1*17:01, isolate 15704.
HE614585 - Homo sapiens mRNA for MHC class II antigen (HLA-DPB1 gene), allele HLA-DPB1*26:01:02, isolate 21740.
HE614586 - Homo sapiens mRNA for MHC class II antigen (HLA-DPB1 gene), allele DPB1*39:01, isolate 17677.
HE614587 - Homo sapiens mRNA for MHC class II antigen (HLA-DPB1 gene), allele DPB1*18:01, isolate 21251.
HE614588 - Homo sapiens mRNA for MHC class II antigen (HLA-DPB1 gene), allele DPB1*11:01:01, isolate 33274.
HE614589 - Homo sapiens mRNA for MHC class II antigen (HLA-DPB1 gene), allele DPB1*21:01, isolate 18168.
HE614590 - Homo sapiens mRNA for MHC class II antigen (HLA-DPB1 gene), allele DPB1*06:01, isolate 18161.
HE614591 - Homo sapiens mRNA for MHC class II antigen (HLA-DPB1 gene), allele DPB1*27:01, isolate 17806.
HE603611 - Homo sapiens mRNA for MHC class II antigen (HLA-DPB1 gene), allele HLA-DPB1*10:01.
HE603612 - Homo sapiens mRNA for MHC class II antigen (HLA-DPB1 gene), allele HLA-DPB1*16:01.
FR775797 - Homo sapiens mRNA for MHC class II antigen (HLA-DPB1 gene), HLA-DPB1*1701_new allele.

-  Biochemical and Signaling Pathways
  KEGG - Kyoto Encyclopedia of Genes and Genomes
hsa04514 - Cell adhesion molecules (CAMs)
hsa04612 - Antigen processing and presentation
hsa04672 - Intestinal immune network for IgA production
hsa04940 - Type I diabetes mellitus
hsa05140 - Leishmaniasis
hsa05310 - Asthma
hsa05320 - Autoimmune thyroid disease
hsa05322 - Systemic lupus erythematosus
hsa05330 - Allograft rejection
hsa05332 - Graft-versus-host disease
hsa05416 - Viral myocarditis

-  Other Names for This Gene
  Alternate Gene Symbols: AY804141, DAMA-245O6.7-001, NM_002121, NP_002112, Q5EP54, Q5EP54_HUMAN
UCSC ID: uc021zqs.1
RefSeq Accession: NM_002121
Protein: Q5EP54

-  Gene Model Information
 
category: coding nonsense-mediated-decay: no RNA accession: AY804141.1
exon count: 6CDS single in 3' UTR: no RNA size: 893
ORF size: 774CDS single in intron: no Alignment % ID: 96.62
txCdsPredict score: 1710.50frame shift in genome: no % Coverage: 95.97
has start codon: yes stop codon in genome: no # of Alignments: 8
has end codon: yes retained intron: no # AT/AC introns 0
selenocysteine: no end bleed into intron: 0# strange splices: 0
Click here for a detailed description of the fields of the table above.

-  Methods, Credits, and Use Restrictions
  Click here for details on how this gene model was made and data restrictions if any.