dbEM
A Database of Epigenetic Modifiers
Cite: Nanda JS, Kumar R, Raghava GP. (2016) dbEM: A database of epigenetic modifiers curated from cancerous and normal genomes. Sci Rep. 6:19340.
Protein: ELP3 |
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Mutation Data (+)
# Cell Line/Tumor sample Tissue of Origin cDNA change Protein change Source FATHMM Prediction PolyPhen2 Prediction 1 98735 LUNG c.658A>G p.I220V COSMIC NP Benign 2 ESO-169 OESOPHAGUS c.533C>T p.P178L COSMIC NP NP 3 ESOSCC156T OESOPHAGUS c.1411A>G p.I471V COSMIC NP Benign 4 HN_62699 UPPER AERODIGESTIVE TRACT c.409G>T p.A137S COSMIC NP NP 5 LC_C6 LUNG c.508A>T p.M170L COSMIC NP NP 6 LC_S11 LUNG c.1384C>T p.R462C COSMIC NP NP 7 LC_S6 LUNG c.1142_1143insAGTGG p.N382fs*4 COSMIC NP NP 8 LUAD-B01811 LUNG c.957T>C p.P319P COSMIC NP NP 9 LUAD-RT-S01700 LUNG c.635T>A p.L212H COSMIC NP Probably Damaging 10 LUAD-S01357 LUNG c.1211G>C p.R404T COSMIC NP NP 11 RK182_C01 LIVER c.658A>T p.I220F COSMIC NP NP 12 T163 KIDNEY c.904delA p.T302fs*14 COSMIC NP NP 13 TCGA-18-3409-01 LUNG c.831C>T p.S277S COSMIC NP NP 14 TCGA-18-4086-01 LUNG c.824A>G p.K275R COSMIC NP NP 15 TCGA-23-1809-01 OVARY c.1385G>A p.R462H COSMIC NP NP 16 TCGA-69-7978-01 LUNG c.442A>T p.T148S COSMIC NP NP 17 TCGA-A2-A0EY-01 BREAST c.903C>T p.F301F COSMIC NP NP 18 TCGA-A3-3311-01 KIDNEY c.505G>A p.V169M COSMIC NP NP 19 TCGA-AA-3525-01 LARGE INTESTINE c.518C>T p.T173M COSMIC NP NP 20 TCGA-AA-3555-01 LARGE INTESTINE c.1390G>A p.E464K COSMIC NP NP 21 TCGA-AG-3581-01 LARGE INTESTINE c.1620G>A p.P540P COSMIC NP NP 22 TCGA-AP-A051-01 ENDOMETRIUM c.1440T>C p.S480S COSMIC NP NP 23 TCGA-AP-A056-01 ENDOMETRIUM c.109G>A p.D37N COSMIC NP NP 24 TCGA-AP-A056-01 ENDOMETRIUM c.559C>T p.R187* COSMIC NP NP 25 TCGA-AP-A0LM-01 ENDOMETRIUM c.1106T>G p.I369S COSMIC NP NP 26 TCGA-AX-A05Z-01 ENDOMETRIUM c.559C>T p.R187* COSMIC NP NP 27 TCGA-AX-A0J1-01 ENDOMETRIUM c.206G>A p.R69H COSMIC PASSENGER/OTHER Benign 28 TCGA-B5-A11E-01 ENDOMETRIUM c.1348C>A p.L450I COSMIC NP NP 29 TCGA-BS-A0UF-01 ENDOMETRIUM c.538G>T p.E180* COSMIC NP NP 30 TCGA-BS-A0UV-01 ENDOMETRIUM c.18A>C p.K6N COSMIC NP NP 31 TCGA-DK-A1AG-01 URINARY TRACT c.1098G>C p.Q366H COSMIC NP NP 32 TCGA-E2-A109-01 BREAST c.959delC p.L321fs*2 COSMIC NP NP 33 TCGA-G4-6307-01 LARGE INTESTINE c.198T>A p.P66P COSMIC NP NP 34 TCGA-G4-6628-01 LARGE INTESTINE c.771C>T p.D257D COSMIC NP NP 35 ccRCC-49 KIDNEY c.954_955insC p.T320fs*11 COSMIC NP NP
*NP: Not Predicted -
Copy number variation and expression profile (+)
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Gene Essentiality Data (+)
Note: Lower the GARP score (more negative), higher the essentiality of the gene. P-value tells about the significane of GARP score.test -
Tertiary structure (+)
Users must enabled the Java in their browser to see structure.
Users can also download Java from here.Modelled Structure Structures available in PDB Structure is not available in PDB -
Structure Domains (+)
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Sequence Alignment (+)
Users must enabled the Java in their browser to see sequence alignments.
Users can also download Java from here.1. Sequence alignment with 1000 genome variations:
Click on button to get Sequence alignment with Coverage, Consensus and Quality 2. Mutants are not present in CCLE!!3. Sequence alignment with COSMIC mutants:
Click on button to get Sequence alignment with Coverage, Consensus and Quality 4. Sequence alignment with homologus proteins:
Click on button to get Sequence alignment with Coverage, Consensus and Quality -
Sequence Profiles (+)
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Post Translational Modifications (+)
$x "); for($d=2;$d<$l777;$d++) { fwrite($FP6,$row6[$d]); fwrite($FP7,"$row6[$d] "); fwrite($FP6,"\t"); } fwrite($FP6,"\n"); fwrite($FP7,""); } fclose($FP6); echo""; } else{echo"
"; ##### table ##### $ptm_tr=file_get_contents("$dir/ptm"); if($ptm_tr != '') { echo"S. No. Position Amino acid Type Post translational modifications are not found!!";} ?> -
Other Databases Link (+)
Proteomics DB COSMIC Gene Atlas STRING PIR ELP3 ELP3 ELP3 ENSP00000429180 B4DKA4 QuickGO HGNC Ensembl Genome Browser TreeFam UniProt B4DKA4 ELP3 ENSP00000429180 ELP3 B4DKA4 Expression Atlas Protein Atlas OMIM IntAct PharmGKB ELP3 ENSP00000429180 612722 B4DKA4 PA134992603
