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: SMYD3 |
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Mutation Data (+)
# Cell Line/Tumor sample Tissue of Origin cDNA change Protein change Source FATHMM Prediction PolyPhen2 Prediction 1 2334196 LUNG c.754G>T p.A252S COSMIC NP NP 2 587246 LARGE INTESTINE c.127G>A p.V43I COSMIC NP NP 3 587316 LARGE INTESTINE c.908T>C p.F303S COSMIC NP NP 4 HCC56T LIVER c.510C>A p.I170I COSMIC NP NP 5 LUAD-5V8LT LUNG c.795C>T p.N265N COSMIC NP NP 6 LUAD-YINHD LUNG c.1078G>C p.E360Q COSMIC NP NP 7 LUAD-YINHD LUNG c.466G>T p.V156L COSMIC NP NP 8 TCGA-05-4432-01 LUNG c.1045C>A p.H349N COSMIC NP NP 9 TCGA-22-1012-01 LUNG c.643G>A p.D215N COSMIC NP NP 10 TCGA-39-5021-01 LUNG c.75G>A p.K25K COSMIC NP NP 11 TCGA-46-3765-01 LUNG c.531C>A p.T177T COSMIC NP NP 12 TCGA-49-6744-01 LUNG c.166G>A p.G56R COSMIC NP NP 13 TCGA-55-6968-01 LUNG c.840C>G p.I280M COSMIC NP NP 14 TCGA-55-7907-01 LUNG c.391A>T p.M131L COSMIC NP NP 15 TCGA-91-6848-01 LUNG c.920A>G p.H307R COSMIC NP NP 16 TCGA-A2-A0EM-01 BREAST c.1040G>A p.R347K COSMIC NP NP 17 TCGA-A2-A0YK-01 BREAST c.528C>T p.L176L COSMIC NP NP 18 TCGA-A3-3346-01 KIDNEY c.79G>A p.E27K COSMIC NP NP 19 TCGA-A3-3346-01 KIDNEY c.83G>A p.C28Y COSMIC NP NP 20 TCGA-A8-A09I-01 BREAST c.301C>T p.Q101* COSMIC NP NP 21 TCGA-AA-3966-01 LARGE INTESTINE c.1086C>T p.C362C COSMIC NP NP 22 TCGA-AA-A00N-01 LARGE INTESTINE c.167G>T p.G56V COSMIC NP NP 23 TCGA-AA-A010-01 LARGE INTESTINE c.1081G>T p.E361* COSMIC NP NP 24 TCGA-AG-A002-01 LARGE INTESTINE c.178G>T p.E60* COSMIC NP NP 25 TCGA-AG-A002-01 LARGE INTESTINE c.505G>A p.D169N COSMIC NP NP 26 TCGA-AP-A0LD-01 ENDOMETRIUM c.368_369delCT p.S123fs*5 COSMIC NP NP 27 TCGA-AP-A0LM-01 ENDOMETRIUM c.381T>C p.C127C COSMIC NP NP 28 TCGA-AP-A0LM-01 ENDOMETRIUM c.98G>T p.S33I COSMIC PASSENGER/OTHER Possibly Damaging 29 TCGA-B5-A0JY-01 ENDOMETRIUM c.450C>T p.D150D COSMIC NP NP 30 TCGA-B5-A0JY-01 ENDOMETRIUM c.701T>G p.I234S COSMIC NP NP 31 TCGA-B6-A0I2-01 BREAST c.443G>T p.S148I COSMIC NP NP 32 TCGA-BT-A20R-01 URINARY TRACT c.798C>G p.I266M COSMIC NP NP 33 TCGA-EY-A1GS-01 ENDOMETRIUM c.1037G>T p.G346V COSMIC NP NP 34 TCGA-F4-6570-01 LARGE INTESTINE c.700_701insA p.I234fs*2 COSMIC NP NP 35 TCGA-G4-6304-01 LARGE INTESTINE c.21C>T p.R7R COSMIC NP NP 36 cSCCP7 SKIN c.418C>T p.P140S COSMIC NP NP 37 pfg016T STOMACH c.764G>A p.S255N 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 (+)
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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 SMYD3 SMYD3 SMYD3 ENSP00000419184 Q9H7B4 QuickGO HGNC Ensembl Genome Browser TreeFam UniProt Q9H7B4 SMYD3 ENSP00000419184 SMYD3 Q9H7B4 Expression Atlas Protein Atlas OMIM IntAct PharmGKB SMYD3 ENSP00000419184 608783 Q9H7B4 PA37972
