mutLBSgeneDB

mutLBSgeneDB
mutated Ligand Binding Site gene DataBase

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Gene Summary

Ligand Binding Site Mutation Information

Protein Structure Related Information

Gene Expression and Gene-Gene Network

Phenotype Information

Pharmacological Information

Conservation Information for LBS

Gene summary for CYP2B6
Gene summary
Basic gene Info.Gene symbolCYP2B6
Gene namecytochrome P450, family 2, subfamily B, polypeptide 6
SynonymsCPB6|CYP2B|CYP2B7|CYP2B7P|CYPIIB6|EFVM|IIB1|P450
CytomapUCSC genome browser: 19q13.2
Type of geneprotein-coding
RefGenesNM_000767.4,
Description1,4-cineole 2-exo-monooxygenasecytochrome P450 2B6cytochrome P450 IIB1cytochrome P450, subfamily IIB (phenobarbital-inducible), polypeptide 6
Modification date20141222
dbXrefs MIM : 123930
HGNC : HGNC
Ensembl : ENSG00000197408
HPRD : 00477
Vega : OTTHUMG00000182714
ProteinUniProt: P20813
go to UniProt's Cross Reference DB Table
ExpressionCleanEX: HS_CYP2B6
BioGPS: 1555
PathwayNCI Pathway Interaction Database: CYP2B6
KEGG: CYP2B6
REACTOME: CYP2B6
Pathway Commons: CYP2B6
ContextiHOP: CYP2B6
ligand binding site mutation search in PubMed: CYP2B6
UCL Cancer Institute: CYP2B6
Assigned class in mutLBSgeneDBB: This gene belongs to targetable_mutLBSgenes.

Gene ontology having evidence of Inferred from Direct Assay (IDA) from Entrez
GO IDGO TermPubMed ID
GO:0006805xenobiotic metabolic process20061448
GO:0017144drug metabolic process19651758
GO:0042180cellular ketone metabolic process19651758
GO:0042738exogenous drug catabolic process19029318
GO:0055114oxidation-reduction process19651758


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Ligand binding site mutations for CYP2B6

Cancer type specific mutLBS sorted by frequency
LBSAAchange of nsSNVCancer type# samples
A442A444ELUAD2
F202F202LBLCA1
Q357Q357HBLCA1
V104,F108P106ABRCA1
F202Y203HGBM1
T306R308HGBM1
T303T303IKIRC1
V113V113ELUAD1
I241E240KLUSC1
F202F202LLUSC1
I179I179VPRAD1
F188R187QSKCM1
M132M132ISKCM1
R73G71RSKCM1
R73V75MSTAD1
S210V212AUCEC1
A442R443HUCEC1
L363,M365P364SUCEC1
L392L392MUCEC1
A442A442TUCEC1
Q357R358IUCEC1
W121R120CUCEC1
cf) Cancer type abbreviation. BLCA: Bladder urothelial carcinoma, BRCA: Breast invasive carcinoma, CESC: Cervical squamous cell carcinoma and endocervical adenocarcinoma, COAD: Colon adenocarcinoma, GBM: Glioblastoma multiforme, LGG: Brain lower grade glioma, HNSC: Head and neck squamous cell carcinoma, KICH: Kidney chromophobe, KIRC: Kidney renal clear cell carcinoma, KIRP: Kidney renal papillary cell carcinoma, LAML: Acute myeloid leukemia, LUAD: Lung adenocarcinoma, LUSC: Lung squamous cell carcinoma, OV: Ovarian serous cystadenocarcinoma, PAAD: Pancreatic adenocarcinoma, PRAD: Prostate adenocarcinoma, SKCM: Skin cutaneous melanoma, STAD: Stomach adenocarcinoma, THCA: Thyroid carcinoma, UCEC: Uterine corpus endometrial carcinoma.


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Protein structure related information for CYP2B6
Protein structure of wild type (WT) and mutant type (MT) of CYP2B6
Wild type CYP2B6
Mutant type CYP2B6

Free energy of binding of drugs to wild type and mutant tpye of CYP2B6
Gene symbolDrug nameFree energy of binding (kcal/mol) of wild typeFree energy of binding (kcal/mol) of mutant type
CYP2B6Bifonazole-10-9.6

Relative protein structure stability change (ΔΔE) using Mupro 1.1
Mupro score denotes assessment of the effect of mutations on thermodynamic stability.
  (ΔΔE<0: mutation decreases stability, ΔΔE>0: mutation increases stability)
: nsSNV at non-LBS: nsSNV at LBS

nsSNVs sorted by the relative stability change of protein structure by each mutation
Blue: mutations of positive stability change. and red : the most recurrent mutation for this gene.
LBSAAchange of nsSNVRelative stability change
A442A444E0.66831518
T306R308H-1.9003934
L363P364S-1.6445665
M365P364S-1.6445665
F202F202L-1.379282
I179I179V-1.3304864
F202Y203H-1.2846678
V104P106A-1.2485821
F108P106A-1.2485821
I241E240K-1.1983705
L392L392M-1.1531121
S210V212A-1.104919
Q357R358I-0.99465993
A442R443H-0.96018581
W121R120C-0.95596943
Q357Q357H-0.93930048
V113V113E-0.85822172
M132M132I-0.77423573
R73G71R-0.6668519
F188R187Q-0.64957403
R73V75M-0.64619319
T303T303I-0.58017368
A442A442T-0.48310254
(MuPro1.1: Jianlin Cheng et al., Prediction of Protein Stability Changes for Single-Site Mutations Using Support Vector Machines, PROTEINS: Structure, Function, and Bioinformatics. 2006, 62:1125-1132)

Structure image for CYP2B6 from PDB
PDB IDPDB titlePDB structure
3IBDCrystal structure of a cytochrome P450 2B6 genetic variant in complex with the inhibitor 4-(4-chlorophenyl)imidazole

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Differential gene expression and gene-gene network for CYP2B6
Differential gene expression between mutated and non-mutated LBS samples in all 16 major cancer types

Differential co-expressed gene network based on protein-protein interaction data (CePIN)
* Left PPI network was created from samples with mutations in the LBS of CYP2B6 and the right PPI network was created from samples without mutations in the LBS of CYP2B6. Only genes with p-value < 0.05 are shown.
Red circle: input gene. Orange circle: LBSgene. Blue circle: other gene.


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Phenotype information for CYP2B6
Gene level disease information (DisGeNet)
Disease IDDisease name# PubMedAssociation type
umls:C0022661Kidney Failure, Chronic4Biomarker, GeneticVariation
umls:C0206726Gliosarcoma2Therapeutic
umls:C1861063TOBACCO ADDICTION, SUSCEPTIBILITY TO1Biomarker

Mutation level pathogenic information (ClinVar annotation)
Allele IDAA changeClinical significanceOriginPhenotype IDs

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Pharmacological information for CYP2B6
Gene expression profile of anticancer drug treated cell-lines (CCLE)
Heatmap showing the correlation between gene expression and drug response across all the cell-lines. We chose the top 20 among 138 drugs.We used Pearson's correlation coefficient.

Gene-centered drug-gene interaction network
Drug information targeting mutLBSgene (Approved drugs only)
Drug statusDrugBank IDNameTypeDrug structure
ExperimentalDB029744-(4-Chlorophenyl)ImidazoleSmall molecule
ExperimentalDB04664Cyclohexyl-pentyl-maltosideSmall molecule
ApprovedDB04794BifonazoleSmall molecule
ExperimentalDB083691-(biphenyl-4-ylmethyl)-1H-imidazoleSmall molecule

Gene-centered ligand-gene interaction network

Ligands binding to mutated ligand binding site of CYP2B6 go to BioLip
Ligand IDLigand short nameLigand long namePDB IDPDB namemutLBS
CM55-CYCLOHEXYL-1-PENTYL-BETA-D-MALTOSIDE3ibdAF188 F202
CM55-CYCLOHEXYL-1-PENTYL-BETA-D-MALTOSIDE4rqlAF188 F202
CM55-CYCLOHEXYL-1-PENTYL-BETA-D-MALTOSIDE4rqlBF188 F202
CM55-CYCLOHEXYL-1-PENTYL-BETA-D-MALTOSIDE4rrtAF188 F202
CM55-CYCLOHEXYL-1-PENTYL-BETA-D-MALTOSIDE4i91AF188 F202 I241
CM55-CYCLOHEXYL-1-PENTYL-BETA-D-MALTOSIDE4rrtBF188 F202 I241
3QU4-(4-NITROBENZYL)PYRIDINE3qu8AL363
3QU4-(4-NITROBENZYL)PYRIDINE3qu8CL363
3QU4-(4-NITROBENZYL)PYRIDINE3qu8DL363
3QU4-(4-NITROBENZYL)PYRIDINE3qu8EL363
06XAMLODIPINEO3-ETHYL O5-METHYL 2-(2-AZANYLETHOXYMETHYL)-4-(2- CHLOROPHENYL)-6-METHYL-1,4-DIHYDROPYRIDINE-3,5- DICARBOXYLATE3ua5AR73 M365
06XAMLODIPINEO3-ETHYL O5-METHYL 2-(2-AZANYLETHOXYMETHYL)-4-(2- CHLOROPHENYL)-6-METHYL-1,4-DIHYDROPYRIDINE-3,5- DICARBOXYLATE3ua5BR73 M365
06XAMLODIPINEO3-ETHYL O5-METHYL 2-(2-AZANYLETHOXYMETHYL)-4-(2- CHLOROPHENYL)-6-METHYL-1,4-DIHYDROPYRIDINE-3,5- DICARBOXYLATE3ua5AS210 L363
06XAMLODIPINEO3-ETHYL O5-METHYL 2-(2-AZANYLETHOXYMETHYL)-4-(2- CHLOROPHENYL)-6-METHYL-1,4-DIHYDROPYRIDINE-3,5- DICARBOXYLATE3ua5BS210 L363
3QU4-(4-NITROBENZYL)PYRIDINE3qu8BV104 F108 L363
HEMHEME B3ua5AV113 W121
HEMHEME B3qu8AV113 W121 I179 T303 Q357 L363 L392
HEMHEME B3qu8EV113 W121 I179 T303 Q357 L363 L392 A442
HEMHEME B4rrtAV113 W121 I179 T303 T306 L363 L392 A442
HEMHEME B3qu8FV113 W121 I179 T303 T306 Q357 L363 L392 A442
HEMHEME B3ua5BV113 W121 I179 T306 L392
HEMHEME B3qu8DV113 W121 I179 T306 Q357 L363 L392
HEMHEME B4rqlAV113 W121 I179 T306 Q357 L363 L392 A442
HEMHEME B4rrtBV113 W121 I179 T306 Q357 L363 L392 A442
HEMHEME B3qu8BV113 W121 M132 I179 T306 Q357 L363 L392 A442
HEMHEME B4i91AV113 W121 M132 I179 T306 Q357 L363 L392 A442
HEMHEME B4rqlBV113 W121 M132 I179 T306 Q357 L363 L392 A442
HEMHEME B3ibdAV113 W121 T303 T306 Q357 L363 L392 A442
HEMHEME B3qoaAV113 W121 T306 L363 L392 A442
HEMHEME B3qu8CW121 I179 T303 T306 Q357 L363 L392


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Conservation information for LBS of CYP2B6
Multiple alignments for P20813 in multiple species
LBSAA sequence# speciesSpecies
A243LQEINAYIGHS1Homo sapiens
A243LQEILDYIGHI1Rattus norvegicus
A243LQEIKAFIARM1Canis lupus familiaris
A298LSLFFAGTETT2Homo sapiens, Canis lupus familiaris
A298LSLFFAGTETG1Rattus norvegicus
A442LGEGIARAELF1Homo sapiens
A442LGEGIARNELF1Rattus norvegicus
A442LGEGIARMELF1Canis lupus familiaris
C180TANIICSIVFG3Homo sapiens, Rattus norvegicus, Canis lupus familiaris
C436LGKRICLGEGI1Homo sapiens
C436TGKRICLGEGI1Rattus norvegicus
C436IGKRICLGEGI1Canis lupus familiaris
D47NLLQMDRRGLL1Homo sapiens
D47NLLQLDRGGLL1Rattus norvegicus
D47NFLQMDRKGLL1Canis lupus familiaris
E194HYQDQEFLKML1Homo sapiens
E194DYTDRQFLRLL1Rattus norvegicus
E194GYKDPEFLRLM1Canis lupus familiaris
E218FGQLFELFSGF1Homo sapiens
E218SSQVFEFFSGF1Rattus norvegicus
E218SSQMFELFHSF1Canis lupus familiaris
E301FFAGTETTSTT2Homo sapiens, Canis lupus familiaris
E301FFAGTETGSTT1Rattus norvegicus
F108MVDPFFRGYGV1Homo sapiens
F108VIEPIFKEYGV1Rattus norvegicus
F108VVEPVFQGYGV1Canis lupus familiaris
F115GYGVIFANGNR1Homo sapiens
F115EYGVIFANGER1Rattus norvegicus
F115GYGVVFANGER1Canis lupus familiaris
F188VFGKRFHYQDQ1Homo sapiens
F188VFGERFDYTDR1Rattus norvegicus
F188VFGKRFGYKDP1Canis lupus familiaris
F195YQDQEFLKMLN1Homo sapiens
F195YTDRQFLRLLE1Rattus norvegicus
F195YKDPEFLRLMN1Canis lupus familiaris
F202KMLNLFYQTFS1Homo sapiens
F202RLLELFYRTFS1Rattus norvegicus
F202RLMNLFYVSFA1Canis lupus familiaris
F206LFYQTFSLISS1Homo sapiens
F206LFYRTFSLLSS1Rattus norvegicus
F206LFYVSFALISS1Canis lupus familiaris
F220QLFELFSGFLK1Homo sapiens
F220QVFEFFSGFLK1Rattus norvegicus
F220QMFELFHSFLK1Canis lupus familiaris
F227GFLKYFPGAHR2Homo sapiens, Rattus norvegicus
F227SFLKYFPGTHR1Canis lupus familiaris
F296NTLSLFFAGTE1Homo sapiens
F296SLLSLFFAGTE1Rattus norvegicus
F296TALSLFFAGTE1Canis lupus familiaris
F297TLSLFFAGTET1Homo sapiens
F297LLSLFFAGTET1Rattus norvegicus
F297ALSLFFAGTET1Canis lupus familiaris
F389KDTEVFLILST1Homo sapiens
F389KNTEVYPILSS1Rattus norvegicus
F389KGTEVFPILHS1Canis lupus familiaris
F429EAFIPFSLGKR1Homo sapiens
F429EAFMPFSTGKR1Rattus norvegicus
F429EAFIPFSIGKR1Canis lupus familiaris
G299SLFFAGTETTS2Homo sapiens, Canis lupus familiaris
G299SLFFAGTETGS1Rattus norvegicus
G366DLLPMGVPHIV1Homo sapiens
G366DLAPIGLPHRV1Rattus norvegicus
G366DLLPIGVPHMV1Canis lupus familiaris
G438KRICLGEGIAR3Homo sapiens, Rattus norvegicus, Canis lupus familiaris
G476TPQECGVGKIP1Homo sapiens
G476TPKESGIAKIP1Rattus norvegicus
G476TPQEIGVGKLP1Canis lupus familiaris
G50QMDRRGLLKSF1Homo sapiens
G50QLDRGGLLNSF1Rattus norvegicus
G50QMDRKGLLKSF1Canis lupus familiaris
H247NAYIGHSVEKH1Homo sapiens
H247LDYIGHIVEKH1Rattus norvegicus
H247KAFIARMVEKH1Canis lupus familiaris
H369PMGVPHIVTQH1Homo sapiens
H369PIGLPHRVTKD1Rattus norvegicus
H369PIGVPHMVTKD1Canis lupus familiaris
I101SGRGKIAMVDP1Homo sapiens
I101SGRGTIAVIEP1Rattus norvegicus
I101SGRGKIAVVEP1Canis lupus familiaris
I114RGYGVIFANGN1Homo sapiens
I114KEYGVIFANGE1Rattus norvegicus
I114QGYGVVFANGE1Canis lupus familiaris
I179ITANIICSIVF2Homo sapiens, Rattus norvegicus
I179MTANIICSIVF1Canis lupus familiaris
I241KNLQEINAYIG1Homo sapiens
I241KNLQEILDYIG1Rattus norvegicus
I241NNLQEIKAFIA1Canis lupus familiaris
I441CLGEGIARAEL1Homo sapiens
I441CLGEGIARNEL1Rattus norvegicus
I441CLGEGIARMEL1Canis lupus familiaris
L199EFLKMLNLFYQ1Homo sapiens
L199QFLRLLELFYR1Rattus norvegicus
L199EFLRLMNLFYV1Canis lupus familiaris
L216SVFGQLFELFS1Homo sapiens
L216SFSSQVFEFFS1Rattus norvegicus
L216SFSSQMFELFH1Canis lupus familiaris
L219GQLFELFSGFL1Homo sapiens
L219SQVFEFFSGFL1Rattus norvegicus
L219SQMFELFHSFL1Canis lupus familiaris
L295LNTLSLFFAGT1Homo sapiens
L295ISLLSLFFAGT1Rattus norvegicus
L295DTALSLFFAGT1Canis lupus familiaris
L362QRFSDLLPMGV1Homo sapiens
L362QRFADLAPIGL1Rattus norvegicus
L362QRFGDLLPIGV1Canis lupus familiaris
L363RFSDLLPMGVP1Homo sapiens
L363RFADLAPIGLP1Rattus norvegicus
L363RFGDLLPIGVP1Canis lupus familiaris
L39PRPLPLLGNLL2Homo sapiens, Rattus norvegicus
L39PRPLPILGNFL1Canis lupus familiaris
L392EVFLILSTALH1Homo sapiens
L392EVYPILSSALH1Rattus norvegicus
L392EVFPILHSALN1Canis lupus familiaris
L40RPLPLLGNLLQ2Homo sapiens, Rattus norvegicus
L40RPLPILGNFLQ1Canis lupus familiaris
L43PLLGNLLQMDR1Homo sapiens
L43PLLGNLLQLDR1Rattus norvegicus
L43PILGNFLQMDR1Canis lupus familiaris
L437GKRICLGEGIA3Homo sapiens, Rattus norvegicus, Canis lupus familiaris
L51MDRRGLLKSFL1Homo sapiens
L51LDRGGLLNSFM1Rattus norvegicus
L51MDRKGLLKSFL1Canis lupus familiaris
M132FSLATMRDFGM2Rattus norvegicus, Canis lupus familiaris
M132FSVTTMRDFGM1Homo sapiens
M198QEFLKMLNLFY1Homo sapiens
M198RQFLRLLELFY1Rattus norvegicus
M198PEFLRLMNLFY1Canis lupus familiaris
M365SDLLPMGVPHI1Homo sapiens
M365ADLAPIGLPHR1Rattus norvegicus
M365GDLLPIGVPHM1Canis lupus familiaris
M46GNLLQMDRRGL1Homo sapiens
M46GNLLQLDRGGL1Rattus norvegicus
M46GNFLQMDRKGL1Canis lupus familiaris
P228FLKYFPGAHRQ2Homo sapiens, Rattus norvegicus
P228FLKYFPGTHRQ1Canis lupus familiaris
P368LPMGVPHIVTQ1Homo sapiens
P368APIGLPHRVTK1Rattus norvegicus
P368LPIGVPHMVTK1Canis lupus familiaris
P428TEAFIPFSLGK1Homo sapiens
P428SEAFMPFSTGK1Rattus norvegicus
P428NEAFIPFSIGK1Canis lupus familiaris
Q215SSVFGQLFELF1Homo sapiens
Q215SSFSSQVFEFF1Rattus norvegicus
Q215SSFSSQMFELF1Canis lupus familiaris
Q357VIYEIQRFSDL1Homo sapiens
Q357VIHEIQRFADL1Rattus norvegicus
Q357VIHEIQRFGDL1Canis lupus familiaris
R125RWKVLRRFSVT1Homo sapiens
R125RWKALRRFSLA1Rattus norvegicus
R125RWKTLRRFSLA1Canis lupus familiaris
R232FPGAHRQVYKN1Homo sapiens
R232FPGAHRQISKN1Rattus norvegicus
R232FPGTHRQVYNN1Canis lupus familiaris
R434FSLGKRICLGE1Homo sapiens
R434FSTGKRICLGE1Rattus norvegicus
R434FSIGKRICLGE1Canis lupus familiaris
R48LLQMDRRGLLK1Homo sapiens
R48LLQLDRGGLLN1Rattus norvegicus
R48FLQMDRKGLLK1Canis lupus familiaris
R49LQMDRRGLLKS1Homo sapiens
R49LQLDRGGLLNS1Rattus norvegicus
R49LQMDRKGLLKS1Canis lupus familiaris
R73VHLGPRPVVML2Homo sapiens, Rattus norvegicus
R73VYLGPRRTVML1Canis lupus familiaris
R98EAFSGRGKIAM1Homo sapiens
R98EDFSGRGTIAV1Rattus norvegicus
R98EAFSGRGKIAV1Canis lupus familiaris
S210TFSLISSVFGQ1Homo sapiens
S210TFSLLSSFSSQ1Rattus norvegicus
S210SFALISSFSSQ1Canis lupus familiaris
S430AFIPFSLGKRI1Homo sapiens
S430AFMPFSTGKRI1Rattus norvegicus
S430AFIPFSIGKRI1Canis lupus familiaris
T300LFFAGTETTST2Homo sapiens, Canis lupus familiaris
T300LFFAGTETGST1Rattus norvegicus
T302FAGTETTSTTL2Homo sapiens, Canis lupus familiaris
T302FAGTETGSTTL1Rattus norvegicus
T303AGTETTSTTLR2Homo sapiens, Canis lupus familiaris
T303AGTETGSTTLR1Rattus norvegicus
T306ETTSTTLRYGF2Homo sapiens, Canis lupus familiaris
T306ETGSTTLRYGF1Rattus norvegicus
V104GKIAMVDPFFR1Homo sapiens
V104GTIAVIEPIFK1Rattus norvegicus
V104GKIAVVEPVFQ1Canis lupus familiaris
V113FRGYGVIFANG1Homo sapiens
V113FKEYGVIFANG1Rattus norvegicus
V113FQGYGVVFANG1Canis lupus familiaris
V367LLPMGVPHIVT1Homo sapiens
V367LAPIGLPHRVT1Rattus norvegicus
V367LLPIGVPHMVT1Canis lupus familiaris
V477PQECGVGKIPP1Homo sapiens
V477PKESGIAKIPP1Rattus norvegicus
V477PQEIGVGKLPP1Canis lupus familiaris
W121ANGNRWKVLRR1Homo sapiens
W121ANGERWKALRR1Rattus norvegicus
W121ANGERWKTLRR1Canis lupus familiaris
Y244QEINAYIGHSV1Homo sapiens
Y244QEILDYIGHIV1Rattus norvegicus
Y244QEIKAFIARMV1Canis lupus familiaris


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