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mutLBSgeneDB |
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| Gene summary for TRAF6 |
 Gene summary |
| Basic gene Info. | Gene symbol | TRAF6 |
| Gene name | TNF receptor-associated factor 6, E3 ubiquitin protein ligase | |
| Synonyms | MGC:3310|RNF85 | |
| Cytomap | UCSC genome browser: 11p12 | |
| Type of gene | protein-coding | |
| RefGenes | NM_004620.3, NM_145803.2, | |
| Description | E3 ubiquitin-protein ligase TRAF6RING finger protein 85TNF receptor-associated factor 6interleukin-1 signal transducer | |
| Modification date | 20141207 | |
| dbXrefs | MIM : 602355 | |
| HGNC : HGNC | ||
| HPRD : 03833 | ||
| Protein | UniProt: Q9Y4K3 go to UniProt's Cross Reference DB Table | |
| Expression | CleanEX: HS_TRAF6 | |
| BioGPS: 7189 | ||
| Pathway | NCI Pathway Interaction Database: TRAF6 | |
| KEGG: TRAF6 | ||
| REACTOME: TRAF6 | ||
| Pathway Commons: TRAF6 | ||
| Context | iHOP: TRAF6 | |
| ligand binding site mutation search in PubMed: TRAF6 | ||
| UCL Cancer Institute: TRAF6 | ||
| Assigned class in mutLBSgeneDB | C: This gene just belongs to mutLBSgenes. | |
| Gene ontology having evidence of Inferred from Direct Assay (IDA) from Entrez |
| GO ID | GO Term | PubMed ID | GO:0000209 | protein polyubiquitination | 15125833 | GO:0032147 | activation of protein kinase activity | 17135271 | GO:0043123 | positive regulation of I-kappaB kinase/NF-kappaB signaling | 17135271 | GO:0043507 | positive regulation of JUN kinase activity | 11751921 | GO:0045672 | positive regulation of osteoclast differentiation | 17135271 | GO:0045944 | positive regulation of transcription from RNA polymerase II promoter | 11751921 | GO:0051092 | positive regulation of NF-kappaB transcription factor activity | 11279055 | GO:0051865 | protein autoubiquitination | 17135271 | GO:0070534 | protein K63-linked ubiquitination | 19713527 | GO:0070555 | response to interleukin-1 | 17135271 | GO:0071222 | cellular response to lipopolysaccharide | 23776175 | GO:2000679 | positive regulation of transcription regulatory region DNA binding | 11751921 |
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| Ligand binding site mutations for TRAF6 |
| 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 | C155,H151 | A153S | COAD | 1 | C85,H87 | G86S | COAD | 1 | H412 | M414I | LUSC | 1 | P468 | R466W | OV | 1 | F410 | L409F | SKCM | 1 | H376 | H376Y | SKCM | 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 TRAF6 |
| 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 | H151 | A153S | -1.348464 | C155 | A153S | -1.348464 | F410 | L409F | -1.0642859 | C85 | G86S | -1.039499 | H87 | G86S | -1.039499 | H412 | M414I | -0.82304933 | P468 | R466W | -0.78543986 | H376 | H376Y | -0.46187153 |
| (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 TRAF6 from PDB |
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| Differential gene expression and gene-gene network for TRAF6 |
| 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 TRAF6 |
| Gene level disease information (DisGeNet) |
| Disease ID | Disease name | # PubMed | Association type |
| umls:C0003873 | Arthritis, Rheumatoid | 8 | Biomarker, GeneticVariation |
| umls:C1956346 | Coronary Artery Disease | 2 | Biomarker |
| Mutation level pathogenic information (ClinVar annotation) |
| Allele ID | AA change | Clinical significance | Origin | Phenotype IDs |
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| Pharmacological information for TRAF6 |
| 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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| Drug information targeting mutLBSgene (Approved drugs only) |
| Drug status | DrugBank ID | Name | Type | Drug structure |
| Gene-centered ligand-gene interaction network |
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| Ligands binding to mutated ligand binding site of TRAF6 go to BioLip |
| Ligand ID | Ligand short name | Ligand long name | PDB ID | PDB name | mutLBS | ZN | ZINC(2+) | 3hcu | C | C155 | ZN | ZINC(2+) | 3hcs | A | C85 H87 | ZN | ZINC(2+) | 3hcs | B | C85 H87 | ZN | ZINC(2+) | 3hct | A | C85 H87 | ZN | ZINC(2+) | 3hcu | A | C85 H87 | ZN | ZINC(2+) | 3hcu | C | C85 H87 | III | Peptide ligand (LYS,GLN,GLU,PRO,GLN,GLU,ILE,ASP,PHE) | 1lb6 | A | F410 H412 P468 | ZN | ZINC(2+) | 3hct | A | H151 | ZN | ZINC(2+) | 3hcs | A | H151 C155 | ZN | ZINC(2+) | 3hcs | B | H151 C155 | ZN | ZINC(2+) | 3hcu | A | H151 C155 | III | Peptide ligand (GLN,MET,PRO,THR,GLU,ASP,GLU,TYR) | 1lb5 | A | H376 F410 P468 | III | Peptide ligand (HIS,GLY,PRO,GLU,GLU,ASN,GLU,TYR,LYS) | 4z8m | A | H376 F410 P468 | III | Peptide ligand (GLY,PRO,GLU,GLU,ASN,GLU,TYR) | 4z8m | B | H376 F410 P468 |
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| Conservation information for LBS of TRAF6 |
| Multiple alignments for Q9Y4K3 in multiple species |
| LBS | AA sequence | # species | Species | A458 | KPELLAFQRPT | 5 | Homo sapiens, Xenopus tropicalis, Mus musculus, Rattus norvegicus, Bos taurus | A458 | KPDLQAFQRPT | 1 | Danio rerio | A458 | KPDLLAFQRPT | 1 | Macaca mulatta | C105 | DAGHKCPVDNE | 6 | Homo sapiens, Xenopus tropicalis, Mus musculus, Rattus norvegicus, Bos taurus, Macaca mulatta | C105 | DTGQKCPVDNE | 1 | Danio rerio | C134 | SLMVKCPNEGC | 3 | Homo sapiens, Bos taurus, Macaca mulatta | C134 | SLTVKCPNKGC | 2 | Mus musculus, Rattus norvegicus | C134 | SLTVKCSNFGC | 1 | Danio rerio | C134 | SLRVKCPSQGC | 1 | Xenopus tropicalis | C139 | CPNEGCLHKME | 3 | Homo sapiens, Bos taurus, Macaca mulatta | C139 | CSNFGCSEKME | 1 | Danio rerio | C139 | CPSQGCTETME | 1 | Xenopus tropicalis | C139 | CPNKGCLQKME | 1 | Mus musculus | C139 | CPNKGCVQKME | 1 | Rattus norvegicus | C155 | DHQVHCEFALV | 2 | Mus musculus, Rattus norvegicus | C155 | DHQAHCEFALM | 1 | Homo sapiens | C155 | KHLSQCRFATA | 1 | Danio rerio | C155 | RHLVRCDFAGV | 1 | Xenopus tropicalis | C155 | EHQAHCEFALM | 1 | Bos taurus | C155 | DHQAHCEFALV | 1 | Macaca mulatta | C70 | ESKYECPICLM | 7 | Homo sapiens, Danio rerio, Xenopus tropicalis, Mus musculus, Rattus norvegicus, Bos taurus, Macaca mulatta | C73 | YECPICLMALR | 6 | Homo sapiens, Xenopus tropicalis, Mus musculus, Rattus norvegicus, Bos taurus, Macaca mulatta | C73 | YECPICLMGLR | 1 | Danio rerio | C85 | AVQTPCGHRFC | 7 | Homo sapiens, Danio rerio, Xenopus tropicalis, Mus musculus, Rattus norvegicus, Bos taurus, Macaca mulatta | C90 | CGHRFCKACII | 4 | Homo sapiens, Mus musculus, Bos taurus, Macaca mulatta | C90 | CGHRFCDSCIR | 1 | Danio rerio | C90 | CGHRFCKACIL | 1 | Xenopus tropicalis | C90 | CGHRFCKACIT | 1 | Rattus norvegicus | C93 | RFCKACIIKSI | 4 | Homo sapiens, Mus musculus, Bos taurus, Macaca mulatta | C93 | RFCDSCIRKSI | 1 | Danio rerio | C93 | RFCKACILKSI | 1 | Xenopus tropicalis | C93 | RFCKACITKSI | 1 | Rattus norvegicus | D108 | HKCPVDNEILL | 5 | Homo sapiens, Mus musculus, Rattus norvegicus, Bos taurus, Macaca mulatta | D108 | QKCPVDNEVLL | 1 | Danio rerio | D108 | HKCPVDNESLM | 1 | Xenopus tropicalis | E448 | RQNHEEIMDAK | 3 | Homo sapiens, Bos taurus, Macaca mulatta | E448 | RQNHEEVMDAK | 2 | Mus musculus, Rattus norvegicus | E448 | -QHHIEVMETK | 1 | Danio rerio | E448 | MQDQEEVMDTK | 1 | Xenopus tropicalis | F410 | NYISLFVHTMQ | 6 | Homo sapiens, Xenopus tropicalis, Mus musculus, Rattus norvegicus, Bos taurus, Macaca mulatta | F410 | NFISLFVHTMQ | 1 | Danio rerio | F471 | RNPKGFGYVTF | 7 | Homo sapiens, Danio rerio, Xenopus tropicalis, Mus musculus, Rattus norvegicus, Bos taurus, Macaca mulatta | G470 | PRNPKGFGYVT | 5 | Homo sapiens, Mus musculus, Rattus norvegicus, Bos taurus, Macaca mulatta | G470 | MRNPKGFGYVT | 1 | Danio rerio | G470 | ARNPKGFGYVT | 1 | Xenopus tropicalis | G472 | NPKGFGYVTFM | 6 | Homo sapiens, Xenopus tropicalis, Mus musculus, Rattus norvegicus, Bos taurus, Macaca mulatta | G472 | NPKGFGYVTFL | 1 | Danio rerio | H151 | RHLEDHQAHCE | 2 | Homo sapiens, Macaca mulatta | H151 | RHLEDHQVHCE | 2 | Mus musculus, Rattus norvegicus | H151 | RQLEKHLSQCR | 1 | Danio rerio | H151 | RHLERHLVRCD | 1 | Xenopus tropicalis | H151 | RHLEEHQAHCE | 1 | Bos taurus | H376 | KPVVIHSPGFY | 3 | Homo sapiens, Bos taurus, Macaca mulatta | H376 | RPVVIHSPGFY | 2 | Mus musculus, Rattus norvegicus | H376 | QPIVLHSPPFY | 1 | Danio rerio | H376 | RPVVIHSQGFY | 1 | Xenopus tropicalis | H412 | ISLFVHTMQGE | 7 | Homo sapiens, Danio rerio, Xenopus tropicalis, Mus musculus, Rattus norvegicus, Bos taurus, Macaca mulatta | H87 | QTPCGHRFCKA | 6 | Homo sapiens, Xenopus tropicalis, Mus musculus, Rattus norvegicus, Bos taurus, Macaca mulatta | H87 | QTPCGHRFCDS | 1 | Danio rerio | K469 | IPRNPKGFGYV | 5 | Homo sapiens, Mus musculus, Rattus norvegicus, Bos taurus, Macaca mulatta | K469 | VMRNPKGFGYV | 1 | Danio rerio | K469 | VARNPKGFGYV | 1 | Xenopus tropicalis | L456 | DAKPELLAFQR | 4 | Homo sapiens, Mus musculus, Rattus norvegicus, Bos taurus | L456 | ETKPDLQAFQR | 1 | Danio rerio | L456 | DTKPELLAFQR | 1 | Xenopus tropicalis | L456 | DAKPDLLAFQR | 1 | Macaca mulatta | L457 | AKPELLAFQRP | 4 | Homo sapiens, Mus musculus, Rattus norvegicus, Bos taurus | L457 | TKPDLQAFQRP | 1 | Danio rerio | L457 | TKPELLAFQRP | 1 | Xenopus tropicalis | L457 | AKPDLLAFQRP | 1 | Macaca mulatta | M450 | NHEEIMDAKPE | 2 | Homo sapiens, Bos taurus | M450 | NHEEVMDAKPE | 2 | Mus musculus, Rattus norvegicus | M450 | HHIEVMETKPD | 1 | Danio rerio | M450 | DQEEVMDTKPE | 1 | Xenopus tropicalis | M450 | NHEEIMDAKPD | 1 | Macaca mulatta | P468 | TIPRNPKGFGY | 5 | Homo sapiens, Mus musculus, Rattus norvegicus, Bos taurus, Macaca mulatta | P468 | TVMRNPKGFGY | 1 | Danio rerio | P468 | TVARNPKGFGY | 1 | Xenopus tropicalis | R392 | YKLCMRLHLQL | 5 | Homo sapiens, Mus musculus, Rattus norvegicus, Bos taurus, Macaca mulatta | R392 | YKLCLRLHLQT | 1 | Danio rerio | R392 | YKLCLRLHLQL | 1 | Xenopus tropicalis | T475 | GFGYVTFMHLE | 5 | Homo sapiens, Mus musculus, Rattus norvegicus, Bos taurus, Macaca mulatta | T475 | GFGYVTFLHLQ | 1 | Danio rerio | T475 | GFGYVTFMHLQ | 1 | Xenopus tropicalis | V107 | GHKCPVDNEIL | 5 | Homo sapiens, Mus musculus, Rattus norvegicus, Bos taurus, Macaca mulatta | V107 | GQKCPVDNEVL | 1 | Danio rerio | V107 | GHKCPVDNESL | 1 | Xenopus tropicalis | V474 | KGFGYVTFMHL | 6 | Homo sapiens, Xenopus tropicalis, Mus musculus, Rattus norvegicus, Bos taurus, Macaca mulatta | V474 | KGFGYVTFLHL | 1 | Danio rerio | Y473 | PKGFGYVTFMH | 6 | Homo sapiens, Xenopus tropicalis, Mus musculus, Rattus norvegicus, Bos taurus, Macaca mulatta | Y473 | PKGFGYVTFLH | 1 | Danio rerio |
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