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CD40 (CD40 molecule, TNF receptor superfamily member 5)

Identity

Other namesBp50
CDW40
TNFRSF5
p50
HGNC (Hugo) CD40
LocusID (NCBI) 958
Location 20q13.12
Location_base_pair Starts at 44746906 and ends at 44758384 bp from pter ( according to hg19-Feb_2009)
Note

Non-annotated gene. Preliminary data : if you are an author
who wish to write a full paper/card on this gene, go to  How to contribute

DNA/RNA

 

External links

Nomenclature
HGNC (Hugo)CD40   11919
Cards
Entrez_Gene (NCBI)CD40  958  CD40 molecule, TNF receptor superfamily member 5
GeneCards (Weizmann)CD40
Ensembl (Hinxton)ENSG00000101017 [Gene_View]  chr20:44746906-44758384 [Contig_View]  CD40 [Vega]
ICGC DataPortalENSG00000101017
cBioPortalCD40
AceView (NCBI)CD40
Genatlas (Paris)CD40
WikiGenes958
SOURCE (Princeton)NM_001250 NM_152854
Genomic and cartography
GoldenPath (UCSC)CD40  -  20q13.12   chr20:44746906-44758384 +  20q13.12   [Description]    (hg19-Feb_2009)
EnsemblCD40 - 20q13.12 [CytoView]
Mapping of homologs : NCBICD40 [Mapview]
OMIM109535   606843   
Gene and transcription
Genbank (Entrez)AB209660 AJ300189 AK222896 AY225405 BC012419
RefSeq transcript (Entrez)NM_001250 NM_152854
RefSeq genomic (Entrez)AC_000152 NC_000020 NC_018931 NG_007279 NT_011362 NW_001838666 NW_004929418
Consensus coding sequences : CCDS (NCBI)CD40
Cluster EST : UnigeneHs.472860 [ NCBI ]
CGAP (NCI)Hs.472860
Alternative Splicing : Fast-db (Paris)GSHG0018798
Alternative Splicing GalleryENSG00000101017
Gene ExpressionCD40 [ NCBI-GEO ]     CD40 [ SEEK ]   CD40 [ MEM ]
Protein : pattern, domain, 3D structure
UniProt/SwissProtP25942 (Uniprot)
NextProtP25942  [Medical]
With graphics : InterProP25942
Splice isoforms : SwissVarP25942 (Swissvar)
Domaine pattern : Prosite (Expaxy)TNFR_NGFR_1 (PS00652)    TNFR_NGFR_2 (PS50050)   
Domains : Interpro (EBI)TNFR/NGFR_Cys_rich_reg [organisation]   TNFR_5 [organisation]  
Related proteins : CluSTrP25942
Domain families : Pfam (Sanger)TNFR_c6 (PF00020)   
Domain families : Pfam (NCBI)pfam00020   
Domain families : Smart (EMBL)TNFR (SM00208)  
DMDM Disease mutations958
Blocks (Seattle)P25942
PDB (SRS)1CDF    1CZZ    1D00    1FLL    1LB6    3QD6   
PDB (PDBSum)1CDF    1CZZ    1D00    1FLL    1LB6    3QD6   
PDB (IMB)1CDF    1CZZ    1D00    1FLL    1LB6    3QD6   
PDB (RSDB)1CDF    1CZZ    1D00    1FLL    1LB6    3QD6   
Human Protein AtlasENSG00000101017 [gene] [tissue] [antibody] [cell] [cancer]
Peptide AtlasP25942
HPRD00178
IPIIPI00018282   IPI00218464   IPI00556230   IPI00980079   
Protein Interaction databases
DIP (DOE-UCLA)P25942
IntAct (EBI)P25942
FunCoupENSG00000101017
BioGRIDCD40
InParanoidP25942
Interologous Interaction database P25942
IntegromeDBCD40
STRING (EMBL)CD40
Ontologies - Pathways
Ontology : AmiGOpositive regulation of protein phosphorylation  immune response-regulating cell surface receptor signaling pathway  antigen binding  signal transducer activity  receptor activity  protein binding  extracellular space  cytoplasm  plasma membrane  plasma membrane  integral component of plasma membrane  protein complex assembly  cellular calcium ion homeostasis  inflammatory response  external side of plasma membrane  enzyme binding  platelet activation  positive regulation of B cell proliferation  ubiquitin protein ligase binding  positive regulation of interleukin-12 production  positive regulation of Rac GTPase activity  CD40 receptor complex  B cell proliferation  positive regulation of tyrosine phosphorylation of Stat1 protein  positive regulation of Cdc42 GTPase activity  positive regulation of I-kappaB kinase/NF-kappaB signaling  intracellular membrane-bounded organelle  positive regulation of MAP kinase activity  positive regulation of transcription from RNA polymerase II promoter  positive regulation of isotype switching to IgG isotypes  regulation of immune response  regulation of immunoglobulin secretion  positive regulation of NF-kappaB transcription factor activity  defense response to virus  extracellular vesicular exosome  cellular response to lipopolysaccharide  cellular response to mechanical stimulus  positive regulation of protein kinase C signaling  positive regulation of endothelial cell apoptotic process  
Ontology : EGO-EBIpositive regulation of protein phosphorylation  immune response-regulating cell surface receptor signaling pathway  antigen binding  signal transducer activity  receptor activity  protein binding  extracellular space  cytoplasm  plasma membrane  plasma membrane  integral component of plasma membrane  protein complex assembly  cellular calcium ion homeostasis  inflammatory response  external side of plasma membrane  enzyme binding  platelet activation  positive regulation of B cell proliferation  ubiquitin protein ligase binding  positive regulation of interleukin-12 production  positive regulation of Rac GTPase activity  CD40 receptor complex  B cell proliferation  positive regulation of tyrosine phosphorylation of Stat1 protein  positive regulation of Cdc42 GTPase activity  positive regulation of I-kappaB kinase/NF-kappaB signaling  intracellular membrane-bounded organelle  positive regulation of MAP kinase activity  positive regulation of transcription from RNA polymerase II promoter  positive regulation of isotype switching to IgG isotypes  regulation of immune response  regulation of immunoglobulin secretion  positive regulation of NF-kappaB transcription factor activity  defense response to virus  extracellular vesicular exosome  cellular response to lipopolysaccharide  cellular response to mechanical stimulus  positive regulation of protein kinase C signaling  positive regulation of endothelial cell apoptotic process  
Pathways : BIOCARTAAntigen Dependent B Cell Activation [Genes]    Th1/Th2 Differentiation [Genes]    Dendritic cells in regulating TH1 and TH2 Development [Genes]    Bystander B Cell Activation [Genes]    CD40L Signaling Pathway [Genes]    B Lymphocyte Cell Surface Molecules [Genes]   
Pathways : KEGGCytokine-cytokine receptor interaction    NF-kappa B signaling pathway    Cell adhesion molecules (CAMs)    Toll-like receptor signaling pathway    Intestinal immune network for IgA production    Malaria    Toxoplasmosis    HTLV-I infection    Epstein-Barr virus infection    Transcriptional misregulation in cancer    Asthma    Autoimmune thyroid disease    Systemic lupus erythematosus    Allograft rejection    Primary immunodeficiency    Viral myocarditis   
Protein Interaction DatabaseCD40
Wikipedia pathwaysCD40
Gene fusion - rearrangments
Polymorphisms : SNP, mutations, diseases
SNP Single Nucleotide Polymorphism (NCBI)CD40
snp3D : Map Gene to Disease958
SNP (GeneSNP Utah)CD40
SNP : HGBaseCD40
Genetic variants : HAPMAPCD40
Exome VariantCD40
1000_GenomesCD40 
ICGC programENSG00000101017 
Somatic Mutations in Cancer : COSMICCD40 
CONAN: Copy Number AnalysisCD40 
Mutations and Diseases : HGMDCD40
Mutations and Diseases : intOGenCD40
Genomic VariantsCD40  CD40 [DGVbeta]
dbVarCD40
ClinVarCD40
Pred. of missensesPolyPhen-2  SIFT(SG)  SIFT(JCVI)  Align-GVGD  MutAssessor  Mutanalyser  
Pred. splicesGeneSplicer  Human Splicing Finder  MaxEntScan  
Diseases
OMIM109535    606843   
MedgenCD40
GENETestsCD40
Disease Genetic AssociationCD40
Huge Navigator CD40 [HugePedia]  CD40 [HugeCancerGEM]
General knowledge
Homologs : HomoloGeneCD40
Homology/Alignments : Family Browser (UCSC)CD40
Phylogenetic Trees/Animal Genes : TreeFamCD40
Chemical/Protein Interactions : CTD958
Chemical/Pharm GKB GenePA36612
Clinical trialCD40
Cancer Resource (Charite)ENSG00000101017
Other databases
Probes
Litterature
PubMed467 Pubmed reference(s) in Entrez
CoreMineCD40
iHOPCD40
OncoSearchCD40
Genes in titleautomatic search in PubMed
REVIEW articlesautomatic search in PubMed
Last year publicationsautomatic search in PubMed

Search in all EBI   NCBI

Contributor(s)

Written09-2002Dessen P, Le Minor S
Updated12-2013Dessen P

© Atlas of Genetics and Cytogenetics in Oncology and Haematology
indexed on : Mon Sep 22 18:43:19 CEST 2014

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