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CD1B Gene

protein-coding   GIFtS: 60

GC01M156564
CD1b molecule
(Previous names: CD1B antigen, b polypeptide, CD1b antigen )
Symbol approved by the HUGO Gene Nomenclature Committee (HGNC) database
(Previous symbol: CD1)
Services    
(According to 1HGNC, 2Entrez Gene,
3UniProtKB/Swiss-Prot, 4UniProtKB/TrEMBL, 5OMIM, 6GeneLoc , and/or 7Ensembl, 8miRBase)
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Aliases
CD1 2
CD1A 2
MGC125990 2
MGC125991 2
OTTHUMP00000018908 2
R1 2
Descriptions
CD1B antigen, b polypeptide 1, 2
CD1b antigen 1, 2, 3
CD1b molecule 2
T-cell surface glycoprotein CD1b 2
cortical thymocyte antigen CD1B 2
differentiation antigen CD1-alpha-3 2
External Ids
HGNC: 16351
Entrez Gene: 9102
UniProtKB: P290163
Ensembl: ENSG000001584857
Search outside databases for aliases for CD1B gene

Previous GC identifers: GC01M156089 GC01M154030 GC01M155075 GC01M155514 GC01M155110

(According to Entrez Gene, Wikipedia's Gene Wiki,
UniProtKB/Swiss-Prot, and/or UniProtKB/TrEMBL)
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EntrezGene summary for CD1B:
This gene encodes a member of the CD1 family of transmembrane glycoproteins, which are structurally
related to the major histocompatibility complex (MHC) proteins and form heterodimers with
beta-2-microglobulin. The CD1 proteins mediate the presentation of primarily lipid and glycolipid
antigens of self or microbial origin to T cells. The human genome contains five CD1 family genes
organized in a cluster on chromosome 1. The CD1 family members are thought to differ in their
cellular localization and specificity for particular lipid ligands. The protein encoded by this
gene localizes to late endosomes and lysosomes via a tyrosine-based motif in the cytoplasmic tail,
and requires vesicular acidification to bind lipid antigens. [provided by RefSeq]

UniProtKB/Swiss-Prot: CD1B_HUMAN, P29016
Function: Antigen-presenting protein that binds self and non-self lipid and glycolipid antigens and
presents them to T-cell receptors on natural killer T-cells

(According to GeneLoc and/or HGNC, and/or
Entrez Gene (NCBI build 36),
and/or miRBase,
Genomic Views according to UCSC and Ensembl, Transcription factor binding sites according to SABiosciences)
About This Section

Genomic View:
UCSC Golden Path with GeneCards custom track

 Transcription factor binding sites upstream to the CD1B gene  

Entrez Gene cytogenetic band: 1q22-q23   Ensembl cytogenetic band:  1q23.1   HGNC cytogenetic band: 1q22-q23

CD1B Gene in genomic location: bands according to Ensembl, locations according to (and/or Entrez Gene and/or Ensembl if different)

GeneLoc gene densities for chromosome 1         GeneLoc Exon Structure

GeneLoc location for GC01M156564:     (about GC identifiers)

Start:
156,564,364 bp from pter
End:
156,567,945 bp from pter
Size:
3,582 bases
Orientation:
minus strand
RefSeq DNA sequence:
NC_000001.9  NT_004487.18  
(According to 1UniProtKB, and/or Ensembl, Phosphorylation sites according to 2Phosphosite, RefSeq according to NCBI, PDB rendering according to OCA and/or Proteopedia, Recombinant Proteins from Invitrogen, Millipore, Sigma-Aldrich, R&D Systems, Enzo Life Sciences, Abnova, OriGene and/or, Abcam,
Biochemical Assays by Invitrogen, Millipore, R&D Systems, Cell Signaling Technology, and/or Enzo Life Sciences, Ontologies according to Gene Ontology Consortium 01 Apr 2009 and Entrez Gene, Antibodies by Invitrogen, Millipore, Sigma-Aldrich, R&D Systems, Cell Signaling Technology, Abcam, Abnova, and/or Novus Biologicals)
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UniProtKB/Swiss-Prot: CD1B_HUMAN, P29016 (See protein sequence)
Recommended Name: T-cell surface glycoprotein CD1b precursor  
Size: 333 amino acids; 36939 Da
Subunit: Heterodimer with B2M (beta-2-microglobulin). Interacts with saposin C
Subcellular location: Cell membrane; Single-pass type I membrane protein. Endosome membrane.
Lysosome membrane. Note=Subject to intracellular trafficking between the cell membrane, endosomes
and lysosomes. Localizes to cell surface lipid rafts
Miscellaneous: During protein synthesis and maturation, CD1 family members bind endogenous lipids
that are replaced by lipid or glycolipid antigens when the proteins are internalized and pass
through endosomes or lysosomes, before trafficking back to the cell surface. Interaction with
saposin C is required for the loading of bacterial lipid antigens onto CD1B in the lysososme
Sequence caution: Sequence=CAI10852.1; Type=Erroneous gene model prediction;
PDB structures from and Proteopedia :
1GZP (3D)    1GZQ (3D)    1UQS (3D)    2H26 (3D)    
Secondary accessions: Q5TDK9 Q5TDL0 Q9UMM2
Alternative splicing: 2 isoforms:  P29016-1   P29016-2   

REFSEQ proteins: NP_001755.1  

ENSEMBL proteins: 
ENSP00000357150 


Human Recombinant Proteins 
Browse Drug Discovery Central at Invitrogen for human recombinant proteins
Browse Purified and Recombinant Proteins at Millipore
Browse Human Recombinant Proteins at Sigma-Aldrich  
Browse R&D Systems for human recombinant proteins
Browse recombinant and purified proteins available from Enzo Life Sciences
Recombinant Proteins from Abcam (CD1, CD1b, CD1b+c)
Human Recombinant Proteins from Abnova (CD1B)
                Browse Origene for full length recombinant human proteins expressed in human HEK293 cells 

5/6 Gene Ontology (GO) cellular component terms (links to tree view) (see all 6 ):

GO IDQualified GO termEvidencePubMed IDs
GO:0005765 lysosomal membrane IEA--
GO:0005768 endosome IEA--
GO:0005886 plasma membrane TAS2447586 2701945
GO:0010008 endosome membrane IEA--
GO:0016021 integral to membrane TAS1702817
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Antibodies for CD1B: 
Invitrogen Antibodies for CD1B
Millipore Mono- and Polyclonal Antibodies for the study of CD1B
Sigma-Aldrich Antibodies for CD1B
Browse R&D Systems for Antibodies
Antibodies from Abcam (CD1, CD1b, CD1b+c), each with their AbpromiseSM
Monoclonal and Polyclonal Antibodies from Abnova (CD1B)
Novus Biologicals Antibodies for CD1B

Assays for CD1B: 
Browse Invitrogen for biochemical assays
Browse Kits and Assays available from Millipore
Browse R&D Systems for biochemical assays
Browse biochemical assays available from Enzo Life Sciences

(According to InterPro, ProtoNet, UniProtKB, and/or BLOCKS, Sets of similar genes according to GeneDecks)
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5 InterPro domains/families:
 IPR013783 Ig-like_fold
 IPR003597 Ig_C1-set
 IPR007110 Ig-like
 IPR011161 MHC_I-like_Ag-recog
 IPR001039 MHC_I_a_a1/a2


   GeneDecks  CD1B for the domains selected above  
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Graphical View of Domain Structure for InterPro Entry P29016

ProtoNet protein and cluster: P29016

1 Blocks protein family: IPB003597 Immunoglobulin C-type

UniProtKB/Swiss-Prot: CD1B_HUMAN, P29016
Similarity: Contains 1 Ig-like (immunoglobulin-like) domain

(According to MGI Jun 06 2009, UniProtKB, IUBMB,and/or Genatlas,
shRNA from OriGene, Sigma-Aldrich, RNAi from Sigma-Aldrich,
RNAi Products, Clones, and Q-PCR Products from Invitrogen, Millipore, OriGene, and/or Abnova, siRNAs from Applied Biosystems, SYBR primers from OriGene, Cell-based Assays from Millipore, Ontologies according to Gene Ontology Consortium 01 Apr 2009 via Entrez Gene.)
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Inhib.
RNA:
Invitrogen RNAi Products for gene knock-down (CD1B)
Browse for Gene Knock-down Tools from Millipore
Browse Abnova for Chimera RNAi Products
              OriGene 29mer shRNA kit in GFP-retroviral vector: NM_001764

              Applied Biosystems Silencer® siRNAs for CD1B

              Sigma-Aldrich siRNA and siRNA Panels for CD1B  
                     Sigma-Aldrich shRNA for CD1B  
                     Explore Sigma-Aldrich super-pooled esiRNAs  

Clones:Invitrogen Clones for CD1B
Browse Clones for the Expression of Recombinant Proteins Available from Millipore
              OriGene GFP tagged cDNA clone in CMV expression vector: NM_001764
                                 Myc/DDK tagged cDNA clone in CMV expression vector: NM_001764
                                 untagged cDNA clone in CMV expression vector: NM_001764 

Primers: Browse Quantitative PCR Central at Invitrogen for Q-PCR LUX™ Primers
              OriGene genome-wide validated SYBR primer pairs: NM_001764

UniProtKB/Swiss-Prot: CD1B_HUMAN, P29016
Function: Antigen-presenting protein that binds self and non-self lipid and glycolipid antigens and
presents them to T-cell receptors on natural killer T-cells

Genatlas biochemistry entry for CD1B:
cell differentiation antigen CD1B,45kDa,membrane glycoprotein,B2M associated,identified by
monoclonal antibodies WM-25,4A76,NUT2 (see CD1@)

1 Gene Ontology (GO) molecular function term (links to tree view):

GO IDQualified GO termEvidencePubMed IDs
GO:0005515 protein binding IPI12118248
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(Pathways according to Invitrogen (maps by GeneGo), Millipore, Cell Signaling Technology, Sigma-Aldrich, KEGG and/or UniProtKB,
Sets of similar genes according to GeneDecks, Proteins Network according to SABiosciences, Interactions according to 1UniProtKB, 2MINT, and/or 3STRING, with links to IntAct and Ensembl, Ontologies according to Gene Ontology Consortium 01 Apr 2009 via Entrez Gene.)
About This Section

2 Invitrogen iPath™ Online BioAtlas - Pathways for CD1B (Maps provided by GeneGo):
 Lectin Induced complement pathway
 Classic complement pathway

   GeneDecks  CD1B for the pathways selected above  
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2 Sigma-Aldrich "Your Favorite Gene" Pathways for  CD1B  (Your Favorite Gene powered by Ingenuity) 
 Lipid Antigen Presentation by CD1
 Dendritic Cell Maturation

   GeneDecks  CD1B for the pathways selected above  
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1 Kegg Pathway  (Kegg details for CD1B):
 hsa04640 Hematopoietic cell lineage

   GeneDecks  CD1B for the pathways selected above  
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 Gene Network CentralTM Interacting Genes and Proteins Network for  CD1B 


5 Interacting proteins for CD1B (ENSP000003571503 P290161, 2) via UniProtKB, MINT, and/or STRING
InteractantInteraction Details
GeneCardExternal ID(s)
B2MP617691, 2STRING (score=.99) EBI-1033762, EBI-714718 MINT-24761 EBI-1033762, EBI-714718 MINT-24761
B2MP617691, 2STRING (score=.99) EBI-1033762, EBI-714718 MINT-24761 EBI-1033762, EBI-714718 MINT-24761
HSPB1ENSP000002485533STRING (score=.86)
CSF2ENSP000002968713STRING (score=.728)
CD4ENSP000000116533STRING (score=.72)
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2 Gene Ontology (GO) biological process terms (links to tree view):

GO IDQualified GO termEvidencePubMed IDs
GO:0006955 immune response IEA--
GO:0019882 antigen processing and presentation IEA--
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(Chemical Compounds according to UniProtKB, Enzo Life Sciences, Sigma-Aldrich, Tocris Bioscience, and/or Novoseek and Drugs according to Enzo Life Sciences and/or PharmGKB)
About This Section

Browse drugs & compounds from Enzo Life Sciences
Browse Small Molecules at Sigma-Aldrich

Browse Tocris compounds for CD1B
2 Novoseek chemical compound relationships for CD1B gene
Compound   Score   Articles   PubMed IDs for Articles with Shared Sentences (# sentences)
glycolipid 75.36 6 14530337 (1), 11208113 (1), 18951873 (1), 9749821 (1) (see all 6)
lipid 56.33 28 11208113 (5), 16445682 (3), 14530337 (2), 14716313 (2) (see all 17)
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2 PharmGKB drug compound relationships for CD1B gene
Drug compound PharmGKB Relations PubMed IDs for articles supporting these relationships
mercaptopurinePD  FA  GN  12704389
methotrexatePD  FA  GN  12704389
About this table


(GenBank/EMBL/DDBJ Accessions according to
Unigene (Build 219 Homo sapiens; Jun 2 2009) or GenBank,
RefSeq according to Entrez Gene,
DOTS (version 10), and/or AceView,
non coding RNAs according to RNAdb,
ESTs according to GeneTide,
exon structure from GeneLoc, alternative splicing isoforms according to ASD and/or ECgene,
RNAi Products from Invitrogen, Millipore, and/or Abnova,
siRNAs from Applied Biosystems, Sigma-Aldrich,
shRNA from Sigma-Aldrich, OriGene,
Tagged/untagged cDNA clones from OriGene,
Expression Assays from Applied Biosystems)
About This Section

Inhib.
RNA:
Invitrogen RNAi Products for gene knock-down (CD1B)
Browse for Gene Knock-down Tools from Millipore
Browse Abnova for Chimera RNAi Products
              OriGene 29mer shRNA kit in GFP-retroviral vector: NM_001764

              Sigma-Aldrich siRNA and siRNA Panels for CD1B  
                     Sigma-Aldrich shRNA for CD1B  
                     Explore Sigma-Aldrich super-pooled esiRNAs  

Applied Biosystems Silencer® siRNAs: 

NM_001764  

REFSEQ mRNAs for CD1B gene: 

NM_001764.2   

Applied Biosystems TaqMan ® Gene Expression Assays: 

NM_001764  

              OriGene GFP tagged cDNA clone in CMV expression vector: NM_001764
                                 Myc/DDK tagged cDNA clone in CMV expression vector: NM_001764
                                 untagged cDNA clone in CMV expression vector: NM_001764 

Additional cDNA sequence: 

AK303329.1 AK303330.1 AK310617.1 BC069481.1 BC074747.2 BC104216.1 BC104217.1 CR601779.1 
M28826.1 

6 DOTS entries:

DT.92037228  DT.100743997  DT.100847363  DT.121417044  DT.121417042  DT.95328694 

22 AceView cDNA sequences:

BC069481 BC074747 CR601779 AA311900 BP368599 M28826 AW083073 BX094495 
AW664772 BX457459 CD687240 AW104324 NM_001764 AI827808 AW027713 AI336342 
AA927946 AW028156 BP367409 T28176 AA983871 BX437125 

highest scoring ESTs for CD1B:

M28826 AA311900 BC069481 AA927946 AW027713 AW028156 BC074747 BP368599 BX094495 CD687240 

Unigene Cluster for CD1B:

CD1b molecule
Hs.1310  [show with all ESTs]
Unigene Representative Sequence: AK310617


GeneLoc Exon Structure

3 Alternative Splicing Database (ASD) splice patterns (SP) for CD1B

ExUns: 1 ^ 2 ^ 3 ^ 4a · 4b · 4c ^ 5 ^ 6 ^ 7
SP1:        -                                             
SP2:                                                      
SP3:                                                      

About this scheme

ECgene alternative splicing isoforms for CD1B

1 Ensembl transcript including schematic representation:
ENST00000368168  
(Experimental results according to 1GeneNote and GNF BioGPS,
probe sets-to-genes annotations according to 2GeneAnnot , 3GeneTide , Sets of similar genes according to GeneDecks, Electronic Northern calculations according to data from UniGene (Build 219 Homo sapiens), SAGE tags according to CGAP, plus additional links to SOURCE, and/or GNF BioGPS, and/or EXPOLDB, and/or UniProtKB,
Expression Assays from Applied Biosystems )
About This Section

CD1B expression in normal and diseased human tissues

 Applied Biosystems TaqMan ® Gene Expression Assays for CD1B

1 / 2 / 3

3 probe-sets matching CD1B gene


Affymetrix
probe-set
Array  GeneAnnot data GeneNote data GeneTide data
# genes Sensitivity Specificity Correlation Length Gb_Accession Consensus Uniqueness Score Rank
34927_at2, 3 U95-A 1 1.00 1.00 1.00 1.00 M28826 1.00 1.00 1.00 1

206749_at2, 3 U133-A 1 1.00 1.00 -- -- NM_001764 0.60 1.00 0.82 1

206749_at2 U133Plus2 1 1.00 1.00 -- -- -- -- -- -- --
GeneDecks  CD1B for binary patterns associated with the probe-sets selected above  
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About this table    
Data from (Publications) and GNF BioGPS
    About these images
About these images

CGAP SAGE TAG: --

SOURCE GeneReport for Unigene cluster: Hs.1310

Expression variation in blood from EXPOLDB for CD1B

UniProtKB/Swiss-Prot: CD1B_HUMAN, P29016
Tissue specificity: Expressed on cortical thymocytes, on certain T-cell leukemias, and in various
other tissues

(Orthologs according to 1,2HomoloGene (2older version, for species not in 1newer version), 3euGenes, 4SGD and/or 5MGI Jun 06 2009, with possible further links to Flybase and/or WormBase, Gene Trees according to Ensembl)
About This Section


Orthologs for CD1B gene from 3 species
Organism Gene Locus Description Human
Similarity
NCBI accessions
chimpanzee
(Pan troglodytes)
CD1B1   -- CD1b molecule 99.3(n)
99.4(a)
457420  XM_513909.2  XP_513909.2 
cow
(Bos taurus)
LOC5216631   -- similar to CD1b molecule 80.88(n)
76.69(a)
521663  XM_599931.3  XP_599931.2 
chicken
(Gallus gallus)
CD1B1   -- CD1b molecule 44.63(n)
26.25(a)
425802  NM_001024582.1  NP_001019753.1 
About this table        Species with no ortholog for CD1B

ENSEMBL Gene Tree for CD1B
(Paralogs according to 1HomoloGene
and 2Ensembl, Pseudogenes according to 3Pseudogene.org)
About This Section

Paralogs for CD1B gene
CD1A2  CD1D2  CD1C2  CD1E2  

(According to the 1NCBI SNP Database, 2Ensembl, 3PupaSUITE, and UniProtKB, Linkage Disequilibrium by HapMap, Genotyping Reagents from Applied Biosystems)
About This Section


10/31 NCBI SNPs in CD1B are shown (see all 31 )
(Click for Applied Biosystems TaqMan ® Genotyping Assay)  (see all 28)
ABGenomic DataTranscription DataAllele Frequencies
SNP IDValidChr 1 posSequenceRecsAA
Chg
TypeMoreRecsAllele
freq
PopTotal
sample
More
------------
rs31768401,2
C,F,H,O156568742(-) TGGCAA/CCTTAC 1 -- ng318Minor allele frequency- C:0.09NA EU EA WA 600
rs31810821,2
C,F,H156569117(-) AACCAG/ATAGTG 1 -- ng315Minor allele frequency- A:0.20NA EU EA WA 458
rs168400961,2
C,F,H156564584(+) ATTGAC/TTTTTG 1 -- ut31 ese37Minor allele frequency- T:0.21NA EU EA WA 560
rs115833901,2
C,F,H156564488(+) AAGTAC/ATTTTT 1 -- ut318Minor allele frequency- A:0.04EU EA WA 832
rs31768471,2
F,H156564319(-) TTTCTG/CCTTCT 1 -- ng515Minor allele frequency- C:0.03NA EU EA WA 458
rs31810831,2
F,H156569025(-) TACTCG/AGAATC 1 -- ng31 tfbs35Minor allele frequency- A:0.08NA EU EA WA 460
rs120619671,2
F,H156568823(+) CCACAT/AGTGGT 1 -- ng314Minor allele frequency- A:0.01EU EA WA 396
--
rs118062491,2
C,H156565923(+) CCTAGC/TTGAGT 1 Q/Q syn1 ese34Minor allele frequency- T:0.00EU EA WA 416
rs9628791,2
A,C,F,H156566930(+) GAGAAG/CTAAGG 1 -- int112Minor allele frequency- C:0.19EA NA MN EU WA 842
--
rs31768421,2
C,F,H156564981(-) gacagC/Ttctac 1 -- int15Minor allele frequency- T:0.41NA EU EA WA 448
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HapMap Linkage Disequilibrium images for CD1B (up to first 250kb)

(in which this Gene is Involved, According to OMIM, UniProtKB, Novoseek, PharmGKB, Genatlas, GeneTests, Blood group antigen gene mutations by BGMUT, HGMD, GAD, HuGE Navigator, BCGD, and/or TGDB.)
About This Section

OMIM: 188360

1 Novoseek disease relationship for CD1B gene

Disease   Score   Articles   PubMed IDs for Articles with Shared Sentences (# sentences)
tuberculosis 39.40 5 9749821 (1), 14716313 (1), 16034117 (1), 15365647 (1)
About this table

1 PharmGKB disease relationship for CD1B gene
Disease PharmGKB Relations PubMed IDs for articles supporting these relationships
Leukemia, Lymphocytic, Acute, L1PD  FA  GN  12704389
About this table

Genetic Association Database: CD1B
Human Genome Epidemiology Navigator: CD1B (3 documents)

(Possibly Related Articles in Doctor's Guide)
About This Section

  --

(in PubMed. Associations of this gene to articles via 1Novoseek, 2HGNC, 3Entrez Gene, 4UniProtKB/Swiss-Prot, 5UniProtKB/TrEMBL, 6GAD, and/or 7PharmGKB)
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10/79 PubMed articles for CD1B gene (see all 79 ):
(in PubMed, OMIM, and NCBI Bookshelf)
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 ANDOR
Aliases
Free Text  

  Query String
PubMed
OMIM
NCBI Bookshelf
  (Note: In FireFox, select the above section and copy using Ctrl-C)
(According to Entrez Gene, HGNC, AceView, euGenes, Ensembl, miRBase, ECgene, and/or H-InvDB)
About This Section

Entrez Gene: 910 HGNC: 1635 AceView: CD1B Ensembl:ENSG00000158485 euGenes: HUgn910
ECgene: CD1B H-InvDB: CD1B
(According to HUGE)
About This Section

  --
(According to ATLAS, HORDE, IMGT, MTDB, LEIDEN, UniProtKB/Swiss-Prot, and/or UniProtKB/TrEMBL,
Wikipedia and/or GeneReviews via UniProtKB/Swiss-Prot)
About This Section

  --
(Available from WIS Yeda, Salk, Tufts)
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  --
(Reagents available from Applied Biosystems, Antibodies and assays by Cell Signaling Technology, Abcam, Novus Biologicals,
Sigma-Aldrich, R&D Systems, Millipore, Abnova, and/or Invitrogen, Clones available from OriGene,and/or Invitrogen, Drugs and/or compounds by Sigma-Aldrich,
Enzo Life Sciences, and/or Tocris Bioscience)
About This Section



Products for CD1B:
 TaqMan ® Gene Expression Assays
 TaqMan ® Genotyping Assays
  Free SNP selection tool



  Invitrogen iPath Pathways  Invitrogen BLOCK-iT™ RNAi
  Invitrogen Antibodies  Invitrogen Assays
  Invitrogen Clones  Invitrogen Q-PCR Products
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  Invitrogen Proteins / Assays / Screening Services  Search Invitrogen catalog for CD1B-related products

 Millipore Custom Antibody & Bulk Services
 Millipore Preclinical / Clinical Development Services
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 Millipore Target Screening & Profiling Services


 Predesigned and custom siRNAs for CD1B Antibodies for CD1B
 Explore super-pooled esiRNAs Browse proteins at Sigma-Aldrich
 Lentivirus-delivered shRNAs for CD1B Browse small molecules at Sigma-Aldrich
 "Your Favorite Gene" Pathwaysfeedback


  
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 Search OriGene for CD1B
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 Search www.enzolifesicences.com for proteins, assays, substrates, inhibitors & antibodies
 Antibodies for CD1B

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