Atlas of Genetics and Cytogenetics in Oncology and Haematology


Home   Genes   Leukemias   Solid Tumours   Cancer-Prone   Deep Insight   Case Reports   Journals  Portal   Teaching   

X Y 1 2 3 4 5 6 7 8 9 10 11 12 13 14 15 16 17 18 19 20 21 22 NA
Taking over the Atlas
Dear Colleagues,
The Atlas, once more, is in great danger, and I will have to proceed to a collective economic lay-off of all the team involved in the Atlas before the begining of April 2015 (a foundation having suddenly withdrawn its commitment to support the Atlas). I ask you herein if any Scientific Society (a Society of Cytogenetics, of Clinical Genetics, of Hematology, or a Cancer Society, or any other...), any University and/or Hospital, any Charity, or any database would be interested in taking over the Atlas, in whole or in part. If taking charge of the whole lot is too big, a consortium of various actors could be the solution (I am myself trying to find partners). Could you please spread the information, contact the relevant authorities, and find partners.
Survival of the Atlas will be critically dependant upon your ability to find solutions (and urgently!).
Kind regards.
Jean-Loup Huret jlhuret@AtlasGeneticsOncology.org
Donations are also welcome
If each casual visitor gives 3 Euros or Dollars, the Atlas is saved in a week !
If each professional gives 100 Euros or Dollars once a year (now), the Atlas is saved in 2 weeks !
Don't let the Atlas imminent demise
Note: we send fiscal receipts for donations equal or above 50 Euros or Dollars

Donate (in Euros)

Donate (in US Dollars)


CYP2D6 (cytochrome P450, family 2, subfamily D, polypeptide 6)

Identity

Other namesCPD6
CYP2D
CYP2D7AP
CYP2D7BP
CYP2D7P2
CYP2D8P2
CYP2DL1
CYPIID6
P450-DB1
P450C2D
P450DB1
HGNC (Hugo) CYP2D6
LocusID (NCBI) 1565
Location 22q13.2
Location_base_pair Starts at 42522501 and ends at 42526883 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)CYP2D6   2625
Cards
Entrez_Gene (NCBI)CYP2D6  1565  cytochrome P450, family 2, subfamily D, polypeptide 6
GeneCards (Weizmann)CYP2D6
Ensembl hg19 (Hinxton)ENSG00000100197 [Gene_View]  chr22:42522501-42526883 [Contig_View]  CYP2D6 [Vega]
Ensembl hg38 (Hinxton)ENSG00000100197 [Gene_View]  chr22:42522501-42526883 [Contig_View]  CYP2D6 [Vega]
ICGC DataPortalENSG00000100197
cBioPortalCYP2D6
AceView (NCBI)CYP2D6
Genatlas (Paris)CYP2D6
WikiGenes1565
SOURCE (Princeton)CYP2D6
Genomic and cartography
GoldenPath hg19 (UCSC)CYP2D6  -     chr22:42522501-42526883 -  22q13.2   [Description]    (hg19-Feb_2009)
GoldenPath hg38 (UCSC)CYP2D6  -     22q13.2   [Description]    (hg38-Dec_2013)
EnsemblCYP2D6 - 22q13.2 [CytoView hg19]  CYP2D6 - 22q13.2 [CytoView hg38]
Mapping of homologs : NCBICYP2D6 [Mapview hg19]  CYP2D6 [Mapview hg38]
OMIM124030   608902   
Gene and transcription
Genbank (Entrez)AK309600 AY663390 BC066877 BC067432 BC075023
RefSeq transcript (Entrez)NM_000106 NM_001025161
RefSeq genomic (Entrez)NC_000022 NC_018933 NG_008376 NT_011520 NT_187682 NW_004504305 NW_004929430 NW_009646208
Consensus coding sequences : CCDS (NCBI)CYP2D6
Cluster EST : UnigeneHs.648256 [ NCBI ]
CGAP (NCI)Hs.648256
Alternative Splicing : Fast-db (Paris)GSHG0020440
Alternative Splicing GalleryENSG00000100197
Gene ExpressionCYP2D6 [ NCBI-GEO ]     CYP2D6 [ SEEK ]   CYP2D6 [ MEM ]
SOURCE (Princeton)Expression in : [Normal Tissue Atlas]  [carcinoma Classsification]  [NCI60]
Protein : pattern, domain, 3D structure
UniProt/SwissProtP10635 (Uniprot)
NextProtP10635  [Medical]
With graphics : InterProP10635
Splice isoforms : SwissVarP10635 (Swissvar)
Catalytic activity : Enzyme1.14.14.1 [ Enzyme-Expasy ]   1.14.14.11.14.14.1 [ IntEnz-EBI ]   1.14.14.1 [ BRENDA ]   1.14.14.1 [ KEGG ]   
Domaine pattern : Prosite (Expaxy)CYTOCHROME_P450 (PS00086)   
Domains : Interpro (EBI)Cyt_P450    Cyt_P450_CS    Cyt_P450_E_grp-I    Cyt_P450_E_grp-I_CYP2D-like   
Related proteins : CluSTrP10635
Domain families : Pfam (Sanger)p450 (PF00067)   
Domain families : Pfam (NCBI)pfam00067   
DMDM Disease mutations1565
Blocks (Seattle)P10635
PDB (SRS)2F9Q    3QM4    3TBG    3TDA   
PDB (PDBSum)2F9Q    3QM4    3TBG    3TDA   
PDB (IMB)2F9Q    3QM4    3TBG    3TDA   
PDB (RSDB)2F9Q    3QM4    3TBG    3TDA   
Human Protein AtlasENSG00000100197
Peptide AtlasP10635
HPRD00487
IPIIPI00943274   IPI00873166   IPI00973047   IPI00456699   IPI00873251   IPI00477143   IPI01011879   IPI00418408   IPI00868752   IPI00433508   
Protein Interaction databases
DIP (DOE-UCLA)P10635
IntAct (EBI)P10635
FunCoupENSG00000100197
BioGRIDCYP2D6
IntegromeDBCYP2D6
STRING (EMBL)CYP2D6
Ontologies - Pathways
QuickGOP10635
Ontology : AmiGOmonooxygenase activity  iron ion binding  mitochondrion  endoplasmic reticulum  endoplasmic reticulum membrane  xenobiotic metabolic process  drug binding  steroid metabolic process  arachidonic acid epoxygenase activity  steroid hydroxylase activity  coumarin metabolic process  alkaloid metabolic process  alkaloid catabolic process  monoterpenoid metabolic process  oxidoreductase activity  oxidoreductase activity, acting on paired donors, with incorporation or reduction of molecular oxygen, reduced flavin or flavoprotein as one donor, and incorporation of one atom of oxygen  drug metabolic process  drug metabolic process  arachidonic acid metabolic process  oxygen binding  heme binding  isoquinoline alkaloid metabolic process  drug catabolic process  exogenous drug catabolic process  small molecule metabolic process  heterocycle metabolic process  negative regulation of binding  oxidation-reduction process  aromatase activity  oxidative demethylation  negative regulation of cellular organofluorine metabolic process  
Ontology : EGO-EBImonooxygenase activity  iron ion binding  mitochondrion  endoplasmic reticulum  endoplasmic reticulum membrane  xenobiotic metabolic process  drug binding  steroid metabolic process  arachidonic acid epoxygenase activity  steroid hydroxylase activity  coumarin metabolic process  alkaloid metabolic process  alkaloid catabolic process  monoterpenoid metabolic process  oxidoreductase activity  oxidoreductase activity, acting on paired donors, with incorporation or reduction of molecular oxygen, reduced flavin or flavoprotein as one donor, and incorporation of one atom of oxygen  drug metabolic process  drug metabolic process  arachidonic acid metabolic process  oxygen binding  heme binding  isoquinoline alkaloid metabolic process  drug catabolic process  exogenous drug catabolic process  small molecule metabolic process  heterocycle metabolic process  negative regulation of binding  oxidation-reduction process  aromatase activity  oxidative demethylation  negative regulation of cellular organofluorine metabolic process  
Pathways : KEGGMetabolism of xenobiotics by cytochrome P450    Drug metabolism - cytochrome P450    Serotonergic synapse   
Protein Interaction DatabaseCYP2D6
DoCM (Curated mutations)CYP2D6
Wikipedia pathwaysCYP2D6
Gene fusion - rearrangements
Polymorphisms : SNP, variants
NCBI Variation ViewerCYP2D6 [hg38]
dbSNP Single Nucleotide Polymorphism (NCBI)CYP2D6
dbVarCYP2D6
ClinVarCYP2D6
1000_GenomesCYP2D6 
Exome Variant ServerCYP2D6
SNP (GeneSNP Utah)CYP2D6
SNP : HGBaseCYP2D6
Genetic variants : HAPMAPCYP2D6
Genomic Variants (DGV)CYP2D6 [DGVbeta]
Mutations
ICGC Data PortalENSG00000100197 
Somatic Mutations in Cancer : COSMICCYP2D6 
CONAN: Copy Number AnalysisCYP2D6 
LOVD (Leiden Open Variation Database)Whole genome datasets
LOVD (Leiden Open Variation Database)LOVD - Leiden Open Variation Database
LOVD (Leiden Open Variation Database)LOVD 3.0 shared installation
Impact of mutations[PolyPhen2] [SIFT Human Coding SNP] [Buck Institute : MutDB] [Mutation Assessor] 
Diseases
DECIPHER (Syndromes)22:42522501-42526883
Mutations and Diseases : HGMDCYP2D6
OMIM124030    608902   
MedgenCYP2D6
NextProtP10635 [Medical]
GENETestsCYP2D6
Disease Genetic AssociationCYP2D6
Huge Navigator CYP2D6 [HugePedia]  CYP2D6 [HugeCancerGEM]
snp3D : Map Gene to Disease1565
DGIdb (Drug Gene Interaction db)CYP2D6
General knowledge
Homologs : HomoloGeneCYP2D6
Homology/Alignments : Family Browser (UCSC)CYP2D6
Phylogenetic Trees/Animal Genes : TreeFamCYP2D6
Chemical/Protein Interactions : CTD1565
Chemical/Pharm GKB GenePA128
Clinical trialCYP2D6
Cancer Resource (Charite)ENSG00000100197
Other databases
Probes
Litterature
PubMed499 Pubmed reference(s) in Entrez
CoreMineCYP2D6
GoPubMedCYP2D6
iHOPCYP2D6
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
Updated02-2015Dessen P

© Atlas of Genetics and Cytogenetics in Oncology and Haematology
indexed on : Sat Mar 28 15:09:42 CET 2015

Home   Genes   Leukemias   Solid Tumours   Cancer-Prone   Deep Insight   Case Reports   Journals  Portal   Teaching   

For comments and suggestions or contributions, please contact us

jlhuret@AtlasGeneticsOncology.org.