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mutLBSgeneDB |
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| Gene summary for CDK7 |
 Gene summary |
| Basic gene Info. | Gene symbol | CDK7 |
| Gene name | cyclin-dependent kinase 7 | |
| Synonyms | CAK1|CDKN7|HCAK|MO15|STK1|p39MO15 | |
| Cytomap | UCSC genome browser: 5q12.1 | |
| Type of gene | protein-coding | |
| RefGenes | NM_001799.3, | |
| Description | 39 KDa protein kinaseCAKCDK-activating kinase 1TFIIH basal transcription factor complex kinase subunitcell division protein kinase 7cyclin-dependent kinase 7 (MO15 homolog, Xenopus laevis, cdk-activating kinase)homolog of Xenopus MO15 Cdk-activating | |
| Modification date | 20141207 | |
| dbXrefs | MIM : 601955 | |
| HGNC : HGNC | ||
| Ensembl : ENSG00000134058 | ||
| HPRD : 15993 | ||
| Vega : OTTHUMG00000099358 | ||
| Protein | UniProt: P50613 go to UniProt's Cross Reference DB Table | |
| Expression | CleanEX: HS_CDK7 | |
| BioGPS: 1022 | ||
| Pathway | NCI Pathway Interaction Database: CDK7 | |
| KEGG: CDK7 | ||
| REACTOME: CDK7 | ||
| Pathway Commons: CDK7 | ||
| Context | iHOP: CDK7 | |
| ligand binding site mutation search in PubMed: CDK7 | ||
| UCL Cancer Institute: CDK7 | ||
| Assigned class in mutLBSgeneDB | B: This gene belongs to targetable_mutLBSgenes. | |
| Gene ontology having evidence of Inferred from Direct Assay (IDA) from Entrez |
| GO ID | GO Term | PubMed ID | GO:0006200 | ATP catabolic process | 9852112 | GO:0006366 | transcription from RNA polymerase II promoter | 9852112 | GO:0045944 | positive regulation of transcription from RNA polymerase II promoter | 8692841 |
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| Ligand binding site mutations for CDK7 |
| Lollipop-style diagram of mutations at LBS in amino-acid sequence. We represented ligand binding site mutations only. (You can see big image via clicking.)  : non-synonymous mutation on LBS, Circle size denotes number of samples. |
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| Cancer type specific mutLBS sorted by frequency |
| LBS | AAchange of nsSNV | Cancer type | # samples | D92 | D92N | BRCA | 1 | A39 | A39V | COAD | 1 | S161 | A159T | GBM | 1 | V26 | K28R | LUAD | 1 | S161 | S161Y | UCEC | 1 | A39 | K41N | UCEC | 1 |
| 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 CDK7 |
| 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 |
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| 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. |
| LBS | AAchange of nsSNV | Relative stability change | D92 | D92N | -0.87267309 | A39 | K41N | -0.85963951 | S161 | S161Y | -0.51526791 | A39 | A39V | -0.4248248 | S161 | A159T | -0.39397786 | V26 | K28R | -0.37629001 |
| (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 CDK7 from PDB |
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| Differential gene expression and gene-gene network for CDK7 |
| 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) |
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| Phenotype information for CDK7 |
| Gene level disease information (DisGeNet) |
| Disease ID | Disease name | # PubMed | Association type |
| umls:C0031117 | Peripheral Nervous System Diseases | 1 | Biomarker |
| Mutation level pathogenic information (ClinVar annotation) |
| Allele ID | AA change | Clinical significance | Origin | Phenotype IDs |
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| Pharmacological information for CDK7 |
| 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. |
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| Gene-centered drug-gene interaction network |
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| Drug information targeting mutLBSgene (Approved drugs only) |
| Drug status | DrugBank ID | Name | Type | Drug structure |
| Experimental | DB02482 | Phosphonothreonine | Small molecule |  |
| Experimental|investigational | DB03496 | Flavopiridol | Small molecule |  |
| Gene-centered ligand-gene interaction network |
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| Ligands binding to mutated ligand binding site of CDK7 go to BioLip |
| Ligand ID | Ligand short name | Ligand long name | PDB ID | PDB name | mutLBS | ATP | ATP | 1ua2 | D | V26 A39 D92 | ATP | ATP | 1ua2 | A | V26 A39 D92 S161 | ATP | ATP | 1ua2 | B | V26 A39 D92 S161 | ATP | ATP | 1ua2 | C | V26 A39 S161 |
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| Conservation information for LBS of CDK7 |
| Multiple alignments for P50613 in multiple species |
| LBS | AA sequence | # species | Species | A24 | GEGQFATVYKA | 2 | Homo sapiens, Mus musculus | A24 | GEGTYGVVYKA | 1 | Arabidopsis thaliana | A24 | GEGQFANVYLA | 1 | Caenorhabditis elegans | A24 | GEGTYAVVYLG | 1 | Saccharomyces cerevisiae (strain ATCC 204508 / S288c) | A24 | GEGTYAVVFLG | 1 | Schizosaccharomyces pombe (strain 972 / ATCC 24843) | A39 | TNQIVAIKKIK | 2 | Homo sapiens, Mus musculus | A39 | TGKTVAVKKIR | 1 | Arabidopsis thaliana | A39 | SGECVAIKKIK | 1 | Caenorhabditis elegans | A39 | TGRKIAIKEIK | 1 | Saccharomyces cerevisiae (strain ATCC 204508 / S288c) | A39 | TNRRVAIKKIK | 1 | Schizosaccharomyces pombe (strain 972 / ATCC 24843) | D92 | ISLVFDFMETD | 2 | Homo sapiens, Mus musculus | D92 | LHLVFEYMQTD | 1 | Arabidopsis thaliana | D92 | IQLVFDFMDTD | 1 | Caenorhabditis elegans | D92 | LNLVLEFLPTD | 1 | Saccharomyces cerevisiae (strain ATCC 204508 / S288c) | D92 | LNIILEFLDSD | 1 | Schizosaccharomyces pombe (strain 972 / ATCC 24843) | E20 | LDFLGEGQFAT | 2 | Homo sapiens, Mus musculus | E20 | RQILGEGTYGV | 1 | Arabidopsis thaliana | E20 | IKHLGEGQFAN | 1 | Caenorhabditis elegans | E20 | EKKVGEGTYAV | 1 | Saccharomyces cerevisiae (strain ATCC 204508 / S288c) | E20 | ERKVGEGTYAV | 1 | Schizosaccharomyces pombe (strain 972 / ATCC 24843) | F23 | LGEGQFATVYK | 2 | Homo sapiens, Mus musculus | F23 | LGEGTYGVVYK | 1 | Arabidopsis thaliana | F23 | LGEGQFANVYL | 1 | Caenorhabditis elegans | F23 | VGEGTYAVVYL | 1 | Saccharomyces cerevisiae (strain ATCC 204508 / S288c) | F23 | VGEGTYAVVFL | 1 | Schizosaccharomyces pombe (strain 972 / ATCC 24843) | F93 | SLVFDFMETDL | 2 | Homo sapiens, Mus musculus | F93 | HLVFEYMQTDL | 1 | Arabidopsis thaliana | F93 | QLVFDFMDTDL | 1 | Caenorhabditis elegans | F93 | NLVLEFLPTDL | 1 | Saccharomyces cerevisiae (strain ATCC 204508 / S288c) | F93 | NIILEFLDSDL | 1 | Schizosaccharomyces pombe (strain 972 / ATCC 24843) | G21 | DFLGEGQFATV | 2 | Homo sapiens, Mus musculus | G21 | QILGEGTYGVV | 1 | Arabidopsis thaliana | G21 | KHLGEGQFANV | 1 | Caenorhabditis elegans | G21 | KKVGEGTYAVV | 1 | Saccharomyces cerevisiae (strain ATCC 204508 / S288c) | G21 | RKVGEGTYAVV | 1 | Schizosaccharomyces pombe (strain 972 / ATCC 24843) | I75 | SHPNIIGLLDA | 2 | Homo sapiens, Mus musculus | I75 | NHPHIVELIDA | 1 | Arabidopsis thaliana | I75 | HHDNIIGLRDV | 1 | Caenorhabditis elegans | I75 | QHPNVIELIDI | 1 | Saccharomyces cerevisiae (strain ATCC 204508 / S288c) | I75 | RHDNVIELVDV | 1 | Schizosaccharomyces pombe (strain 972 / ATCC 24843) | L18 | EKLDFLGEGQF | 2 | Homo sapiens, Mus musculus | L18 | LRRQILGEGTY | 1 | Arabidopsis thaliana | L18 | DTIKHLGEGQF | 1 | Caenorhabditis elegans | L18 | TKEKKVGEGTY | 1 | Saccharomyces cerevisiae (strain ATCC 204508 / S288c) | L18 | VKERKVGEGTY | 1 | Schizosaccharomyces pombe (strain 972 / ATCC 24843) | M94 | LVFDFMETDLE | 2 | Homo sapiens, Mus musculus | M94 | LVFEYMQTDLE | 1 | Arabidopsis thaliana | M94 | LVFDFMDTDLE | 1 | Caenorhabditis elegans | M94 | LVLEFLPTDLE | 1 | Saccharomyces cerevisiae (strain ATCC 204508 / S288c) | M94 | IILEFLDSDLE | 1 | Schizosaccharomyces pombe (strain 972 / ATCC 24843) | N141 | RDLKPNNLLLD | 2 | Homo sapiens, Mus musculus | N141 | RDMKPNNLLIG | 1 | Arabidopsis thaliana | N141 | RDLKPNNLLMN | 1 | Caenorhabditis elegans | N141 | RDLKPNNLLFS | 1 | Saccharomyces cerevisiae (strain ATCC 204508 / S288c) | N141 | RDLKPNNLLIS | 1 | Schizosaccharomyces pombe (strain 972 / ATCC 24843) | N142 | DLKPNNLLLDE | 2 | Homo sapiens, Mus musculus | N142 | DMKPNNLLIGE | 1 | Arabidopsis thaliana | N142 | DLKPNNLLMNK | 1 | Caenorhabditis elegans | N142 | DLKPNNLLFSP | 1 | Saccharomyces cerevisiae (strain ATCC 204508 / S288c) | N142 | DLKPNNLLISS | 1 | Schizosaccharomyces pombe (strain 972 / ATCC 24843) | Q22 | FLGEGQFATVY | 2 | Homo sapiens, Mus musculus | Q22 | ILGEGTYGVVY | 1 | Arabidopsis thaliana | Q22 | HLGEGQFANVY | 1 | Caenorhabditis elegans | Q22 | KVGEGTYAVVY | 1 | Saccharomyces cerevisiae (strain ATCC 204508 / S288c) | Q22 | KVGEGTYAVVF | 1 | Schizosaccharomyces pombe (strain 972 / ATCC 24843) | S161 | FGLAKSFGSPN | 2 | Homo sapiens, Mus musculus | S161 | FGLARLFGSPN | 1 | Arabidopsis thaliana | S161 | FGLARFFGSPN | 1 | Caenorhabditis elegans | S161 | FGLARAIPAPH | 1 | Saccharomyces cerevisiae (strain ATCC 204508 / S288c) | S161 | FGLSRDFGTPS | 1 | Schizosaccharomyces pombe (strain 972 / ATCC 24843) | V26 | GQFATVYKARD | 2 | Homo sapiens, Mus musculus | V26 | GTYGVVYKATD | 1 | Arabidopsis thaliana | V26 | GQFANVYLAQD | 1 | Caenorhabditis elegans | V26 | GTYAVVYLGCQ | 1 | Saccharomyces cerevisiae (strain ATCC 204508 / S288c) | V26 | GTYAVVFLGRQ | 1 | Schizosaccharomyces pombe (strain 972 / ATCC 24843) |
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