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Aliases for CD1B Gene

Aliases for CD1B Gene

  • CD1b Molecule 2 3
  • CD1B Antigen, B Polypeptide 2 3
  • CD1b Antigen 2 4
  • Differentiation Antigen CD1-Alpha-3 3
  • T-Cell Surface Glycoprotein CD1b 3
  • Cortical Thymocyte Antigen CD1B 3
  • CD1A 3
  • CD1 3
  • R1 3

External Ids for CD1B Gene

Previous Symbols for CD1B Gene

  • CD1

Summaries for CD1B Gene

Entrez Gene Summary for CD1B Gene

  • 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, Jul 2008]

GeneCards Summary for CD1B Gene

CD1B (CD1b Molecule) is a Protein Coding gene. Diseases associated with CD1B include mycobacterium malmoense. Among its related pathways are Hematopoietic cell lineage. GO annotations related to this gene include beta-2-microglobulin binding and endogenous lipid antigen binding. An important paralog of this gene is CD1C.

UniProtKB/Swiss-Prot for CD1B Gene

  • 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.

No data available for Tocris Summary , Gene Wiki entry , PharmGKB "VIP" Summary , fRNAdb sequence ontologies and piRNA Summary for CD1B Gene

Genomics for CD1B Gene

Genomic Location for CD1B Gene

Start:
158,327,950 bp from pter
End:
158,331,531 bp from pter
Size:
3,582 bases
Orientation:
Minus strand

Genomic View for CD1B Gene

UCSC Golden Path with GeneCards custom track
Cytogenetic band:
Genomic Location for CD1B Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for CD1B Gene

Regulatory Elements for CD1B Gene

Proteins for CD1B Gene

  • Protein details for CD1B Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    P29016-CD1B_HUMAN
    Recommended name:
    T-cell surface glycoprotein CD1b
    Protein Accession:
    P29016
    Secondary Accessions:
    • Q5TDK9
    • Q5TDL0
    • Q9UMM2

    Protein attributes for CD1B Gene

    Size:
    333 amino acids
    Molecular mass:
    36939 Da
    Quaternary structure:
    • Heterodimer with B2M (beta-2-microglobulin). Interacts with saposin C.
    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 lysosome
    SequenceCaution:
    • Sequence=CAI10852.1; Type=Erroneous gene model prediction; Evidence={ECO:0000305};

    Three dimensional structures from OCA and Proteopedia for CD1B Gene

    Alternative splice isoforms for CD1B Gene

    UniProtKB/Swiss-Prot:

neXtProt entry for CD1B Gene

Proteomics data for CD1B Gene at MOPED

Post-translational modifications for CD1B Gene

  • Modification sites at PhosphoSitePlus
  • Ubiquitination at Lys145, Lys196, and Lys204
  • Glycosylation at Asn38, Asn75, Asn146, and Asn258

Other Protein References for CD1B Gene

ENSEMBL proteins:
REFSEQ proteins:

No data available for DME Specific Peptides for CD1B Gene

Domains for CD1B Gene

Gene Families for CD1B Gene

HGNC:
  • CD :CD molecules
  • C1SET :Immunoglobulin superfamily / C1-set domain containing

UniProtKB/Swiss-Prot:

CD1B_HUMAN
Domain:
  • Contains 1 Ig-like (immunoglobulin-like) domain.:
    • P29016
genes like me logo Genes that share domains with CD1B: view

Function for CD1B Gene

Molecular function for CD1B Gene

GENATLAS Biochemistry: cell differentiation antigen CD1B,45kDa,membrane glycoprotein,B2M associated,identified by monoclonal antibodies WM-25,4A76,NUT2 (see CD1@)
UniProtKB/Swiss-Prot 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.

Gene Ontology (GO) - Molecular Function for CD1B Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005515 protein binding IPI 12118248
GO:0030881 beta-2-microglobulin binding IBA --
GO:0030883 endogenous lipid antigen binding IBA --
GO:0030884 exogenous lipid antigen binding IBA --
GO:0071723 lipopeptide binding IBA --
genes like me logo Genes that share ontologies with CD1B: view

Phenotypes for CD1B Gene

GenomeRNAi human phenotypes for CD1B:
genes like me logo Genes that share phenotypes with CD1B: view

No data available for Enzyme Numbers (IUBMB) , Animal Models , miRNA , Transcription Factor Targeting and HOMER Transcription for CD1B Gene

Localization for CD1B Gene

Subcellular locations from UniProtKB/Swiss-Prot for CD1B Gene

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.

Subcellular locations from

COMPARTMENTS
Jensen Localization Image for CD1B Gene COMPARTMENTS Subcellular localization image for CD1B gene
Compartment Confidence
endosome 5
lysosome 5
plasma membrane 5
vacuole 5
extracellular 2
cytosol 1
endoplasmic reticulum 1
peroxisome 1

Gene Ontology (GO) - Cellular Components for CD1B Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005764 lysosome --
GO:0005765 lysosomal membrane IEA --
GO:0005768 endosome --
GO:0005886 plasma membrane IBA --
GO:0009986 cell surface IDA 23981064
genes like me logo Genes that share ontologies with CD1B: view

Pathways for CD1B Gene

SuperPathways for CD1B Gene

Superpath Contained pathways
1 Hematopoietic cell lineage
genes like me logo Genes that share pathways with CD1B: view

Pathways by source for CD1B Gene

1 KEGG pathway for CD1B Gene

Interacting Proteins for CD1B Gene

Gene Ontology (GO) - Biological Process for CD1B Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0006955 immune response IEA --
GO:0019882 antigen processing and presentation --
GO:0048007 antigen processing and presentation, exogenous lipid antigen via MHC class Ib IBA --
genes like me logo Genes that share ontologies with CD1B: view

Compounds for CD1B Gene

(519) HMDB Compounds for CD1B Gene

Compound Synonyms Cas Number PubMed IDs
3-Dehydrosphinganine
  • 1-Hydroxy-2-amino-3-oxo-octadecane
16105-69-4
3-O-Sulfogalactosylceramide (d18:1/12:0)
  • Sulfatide (d18:1/12:0)
852100-88-0
3-O-Sulfogalactosylceramide (d18:1/14:0)
  • Sulfatide (d18:1/14:0)
Not Available
3-O-Sulfogalactosylceramide (d18:1/16:0)
  • Sulfatide (d18:1/16:0)
862509-48-6
3-O-Sulfogalactosylceramide (d18:1/18:0)
  • Sulfatide (d18:1/18:0)
244215-65-4

(4) Novoseek inferred chemical compound relationships for CD1B Gene

Compound -log(P) Hits PubMed IDs
glycolipid 75.8 6
lipid 56.8 29
rifampicin 30.9 8
phosphatidylcholine 12.5 1
genes like me logo Genes that share compounds with CD1B: view

Transcripts for CD1B Gene

mRNA/cDNA for CD1B Gene

Unigene Clusters for CD1B Gene

CD1b molecule:
Representative Sequences:

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

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

Relevant External Links for CD1B Gene

GeneLoc Exon Structure for
CD1B
ECgene alternative splicing isoforms for
CD1B

Expression for CD1B Gene

mRNA expression in normal human tissues for CD1B Gene

mRNA expression in embryonic tissues and stem cells from LifeMap Discovery

mRNA differential expression in normal tissues according to GTEx for CD1B Gene

This gene is overexpressed in Skin - Not Sun Exposed (Suprapubic) (6.5), Spleen (4.9), and Whole Blood (4.3).

Integrated Proteomics: protein expression from ProteomicsDB, MOPED, and MaxQB for CD1B Gene

SOURCE GeneReport for Unigene cluster for CD1B Gene Hs.1310

mRNA Expression by UniProt/SwissProt for CD1B Gene

P29016-CD1B_HUMAN
Tissue specificity: Expressed on cortical thymocytes, on certain T-cell leukemias, and in various other tissues
genes like me logo Genes that share expressions with CD1B: view

Orthologs for CD1B Gene

This gene was present in the common ancestor of chordates.

Orthologs for CD1B Gene

Organism Taxonomy Gene Similarity Type Details
chimpanzee
(Pan troglodytes)
Mammalia CD1B 36
  • 99.3 (n)
  • 99.4 (a)
CD1B 37
  • 99 (a)
OneToOne
cow
(Bos Taurus)
Mammalia -- 37
  • 74 (a)
OneToMany
-- 37
  • 76 (a)
OneToMany
-- 37
  • 61 (a)
OneToMany
-- 37
  • 70 (a)
OneToMany
-- 37
  • 68 (a)
OneToMany
CD1B3 37
  • 76 (a)
OneToMany
CD1B5 36
  • 81.01 (n)
  • 76.47 (a)
CD1B5 37
  • 76 (a)
OneToMany
dog
(Canis familiaris)
Mammalia CD1B 36
  • 75.57 (n)
  • 71.12 (a)
CD1B 37
  • 69 (a)
OneToOne
chicken
(Gallus gallus)
Aves CD1.2 37
  • 23 (a)
ManyToMany
CD1A1 37
  • 25 (a)
ManyToMany
lizard
(Anolis carolinensis)
Reptilia -- 37
  • 25 (a)
OneToMany
Species with no ortholog for CD1B:
  • A. gosspyii yeast (Ashbya gossypii)
  • Actinobacteria (Mycobacterium tuberculosis)
  • African clawed frog (Xenopus laevis)
  • African malaria mosquito (Anopheles gambiae)
  • Alicante grape (Vitis vinifera)
  • alpha proteobacteria (Wolbachia pipientis)
  • amoeba (Dictyostelium discoideum)
  • Archea (Pyrococcus horikoshii)
  • baker's yeast (Saccharomyces cerevisiae)
  • barley (Hordeum vulgare)
  • beta proteobacteria (Neisseria meningitidis)
  • bread mold (Neurospora crassa)
  • Chromalveolata (Phytophthora infestans)
  • common water flea (Daphnia pulex)
  • corn (Zea mays)
  • E. coli (Escherichia coli)
  • filamentous fungi (Aspergillus nidulans)
  • Firmicute bacteria (Streptococcus pneumoniae)
  • fission yeast (Schizosaccharomyces pombe)
  • fruit fly (Drosophila melanogaster)
  • green algae (Chlamydomonas reinhardtii)
  • honey bee (Apis mellifera)
  • K. lactis yeast (Kluyveromyces lactis)
  • loblloly pine (Pinus taeda)
  • malaria parasite (Plasmodium falciparum)
  • medicago trunc (Medicago Truncatula)
  • moss (Physcomitrella patens)
  • mouse (Mus musculus)
  • oppossum (Monodelphis domestica)
  • orangutan (Pongo pygmaeus)
  • pig (Sus scrofa)
  • platypus (Ornithorhynchus anatinus)
  • rainbow trout (Oncorhynchus mykiss)
  • rat (Rattus norvegicus)
  • rice (Oryza sativa)
  • rice blast fungus (Magnaporthe grisea)
  • schistosome parasite (Schistosoma mansoni)
  • sea anemone (Nematostella vectensis)
  • sea squirt (Ciona intestinalis)
  • sea squirt (Ciona savignyi)
  • sea urchin (Strongylocentrotus purpuratus)
  • sorghum (Sorghum bicolor)
  • soybean (Glycine max)
  • stem rust fungus (Puccinia graminis)
  • sugarcane (Saccharum officinarum)
  • thale cress (Arabidopsis thaliana)
  • tomato (Lycopersicon esculentum)
  • toxoplasmosis (Toxoplasma gondii)
  • Trichoplax (Trichoplax adhaerens)
  • tropical clawed frog (Silurana tropicalis)
  • wheat (Triticum aestivum)
  • worm (Caenorhabditis elegans)
  • zebrafish (Danio rerio)

Evolution for CD1B Gene

ENSEMBL:
Gene Tree for CD1B (if available)
TreeFam:
Gene Tree for CD1B (if available)

Paralogs for CD1B Gene

Paralogs for CD1B Gene

Selected SIMAP similar genes for CD1B Gene using alignment to 2 proteins:

genes like me logo Genes that share paralogs with CD1B: view

Variants for CD1B Gene

Sequence variations from dbSNP and Humsavar for CD1B Gene

SNP ID Clin Chr 01 pos Sequence Context AA Info Type MAF
rs962879 -- 158,330,516(+) GAGAA(C/G)TAAGG intron-variant
rs3068214 -- 158,332,001(+) tgtgt(-/GT)ctgtg upstream-variant-2KB
rs3176840 -- 158,332,328(-) TGGCA(A/C)CTTAC upstream-variant-2KB
rs3176841 -- 158,329,154(-) TCAAA(G/T)GATGG intron-variant
rs3176842 -- 158,328,567(-) GACAG(C/T)TCTAC intron-variant

Structural Variations from Database of Genomic Variants (DGV) for CD1B Gene

Variant ID Type Subtype PubMed ID
dgv393n71 CNV Gain 21882294
nsv831692 CNV Gain 17160897

Relevant External Links for CD1B Gene

HapMap Linkage Disequilibrium report
CD1B

Disorders for CD1B Gene

(1) MalaCards Diseases for CD1B Gene

Search for CD1B Gene in MalaCards »

(2) University of Copenhagen DISEASES for CD1B Gene

(1) Novoseek inferred disease relationships for CD1B Gene

Disease -log(P) Hits PubMed IDs
tuberculosis 42.9 6

Relevant External Links for CD1B

Genetic Association Database (GAD)
CD1B
Human Genome Epidemiology (HuGE) Navigator
CD1B
genes like me logo Genes that share disorders with CD1B: view

No data available for UniProtKB/Swiss-Prot for CD1B Gene

Publications for CD1B Gene

  1. Human CD1b and CD1c isoforms survey different intracellular compartments for the presentation of microbial lipid antigens. (PMID: 10899914) Briken V. … Porcelli S.A. (J. Exp. Med. 2000) 3 4 23
  2. Saposin C is required for lipid presentation by human CD1b. (PMID: 14716313) Winau F. … Schaible U.E. (Nat. Immunol. 2004) 3 4 23
  3. Endogenous phosphatidylcholine and a long spacer ligand stabilize the lipid-binding groove of CD1b. (PMID: 16874306) Garcia-Alles L.F. … Mourey L. (EMBO J. 2006) 3 4 23
  4. Structure and expression of the human thymocyte antigens CD1a, CD1b, and CD1c. (PMID: 2447586) Martin L.H. … Milstein C. (Proc. Natl. Acad. Sci. U.S.A. 1987) 2 3 4
  5. CD1 genotyping of patients with Mycobacterium malmoense pulmonary disease. (PMID: 11580851) Jones D.C. … Bunce M. (Tissue Antigens 2001) 3 49

Products for CD1B Gene

  • Pathway & Disease-focused RT² Profiler PCR Arrays
    • Antigen Presenting Cells in human,mouse,rat
  • QIAGEN qRT-PCR Assays for microRNAs that regulate CD1B
    • QuantiTect SYBR Green Assays in human,mouse,rat
    • Pre-validated RT² qPCR Primer Assay in human,mouse,rat
    • QuantiFast Probe-based Assays in human,mouse,rat
    • Predesigned siRNA for gene silencing in human,mouse,rat for CD1B
    • Block miRNA regulation of CD1B using miScript Target Protectors

    Sources for CD1B Gene

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