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sc-PDB

An Annotated Database of Druggable Binding Sites from the Protein DataBank

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Distribution of Interaction pattern similarity measured by Grim
You can zoom onto the graph by using the mouse to make a selection

Binding Modes are compared using Grim.
For more information, please see the following publication: Desaphy J. et al. Encoding Protein-Ligand Interaction Patterns in Fingerprints and Graphs J. Chem. Inf. Model., 2013, 53 (3), pp 623-637
Binding modes are considered as similar when the similarity value is greater than 0.65


Reference Protein Data Bank Entry :
PDB ID HET Uniprot Name EC Number
4blv SAM Ribosomal RNA large subunit methyltransferase J

Complex with similar interaction patterns:

PDB ID HET Uniprot Name EC Number Binding Mode
Similarity		 Align
4blv SAMRibosomal RNA large subunit methyltransferase J / 1.014
4blw SAHRibosomal RNA large subunit methyltransferase J / 0.773
3a4t SFGtRNA (cytosine(48)-C(5))-methyltransferase 2.1.1 0.765
2cww SAHUncharacterized protein / 0.755
2yxl SFG450aa long hypothetical fmu protein / 0.753
4dmg SAMUncharacterized protein / 0.735
1sqf SAMRibosomal RNA small subunit methyltransferase B 2.1.1.176 0.733
4fp9 SAM5-methylcytosine rRNA methyltransferase NSUN4 2.1.1 0.733
3axt SAMtRNA (guanine(26)-N(2)/guanine(27)-N(2))-dimethyltransferase / 0.723
4ymg SAMPutative SAM-dependent O-methyltranferase / 0.723
3duw SAHO-methyltransferase, putative / 0.722
4pyn SAHCatechol O-methyltransferase 2.1.1.6 0.719
3sso SAHMycinamicin VI 2''-O-methyltransferase / 0.717
3u81 SAHCatechol O-methyltransferase 2.1.1.6 0.703
2yx1 SFGtRNA (guanine(37)-N1)-methyltransferase Trm5b 2.1.1.228 0.699
3m6w SAMRibosomal RNA small subunit methyltransferase F / 0.697
1i9g SAMtRNA (adenine(58)-N(1))-methyltransferase TrmI / 0.694
2hnk SAHSAM-dependent O-methyltransferase / 0.691
4rtm SAMDNA adenine methylase 2.1.1.72 0.690
3cbg SAHO-methyltransferase / 0.687
4fzv SAM5-methylcytosine rRNA methyltransferase NSUN4 2.1.1 0.686
3tos SAHCalS11 / 0.684
3axs SFGtRNA (guanine(26)-N(2)/guanine(27)-N(2))-dimethyltransferase / 0.681
1wg8 SAMRibosomal RNA small subunit methyltransferase H / 0.677
3lga SAHtRNA (adenine(57)-N(1)/adenine(58)-N(1))-methyltransferase TrmI 2.1.1.219 0.677
2g1p SAHDNA adenine methylase 2.1.1.72 0.668
5e72 SAMN2, N2-dimethylguanosine tRNA methyltransferase / 0.668
5e9w SAHmRNA cap guanine-N7 methyltransferase 2.1.1.56 0.668
1boo SAHModification methylase PvuII 2.1.1.113 0.667
4rtj SFGDNA adenine methylase 2.1.1.72 0.666
3ssm SAHMycinamicin VI 2''-O-methyltransferase / 0.665
3tm4 SAMUncharacterized protein / 0.665
4gbe SAHDNA adenine methylase 2.1.1.72 0.665
4x7y SAHMycinamicin III 3''-O-methyltransferase 2.1.1.237 0.665
2xyr SFGReplicase polyprotein 1ab 2.1.1 0.664
2yvl SAMtRNA (adenine(58)-N(1))-methyltransferase TrmI / 0.663
3a27 SAMtRNA(Phe) (4-demethylwyosine(37)-C(7)) aminocarboxypropyltransferase / 0.662
3vyw SAMUncharacterized protein / 0.662
4oa5 SAHO-methyltransferase family protein / 0.662
4xvy SAHMycinamicin III 3''-O-methyltransferase 2.1.1.237 0.662
3a26 MTAtRNA(Phe) (4-demethylwyosine(37)-C(7)) aminocarboxypropyltransferase / 0.661
4rtl SFGDNA adenine methylase 2.1.1.72 0.660
5k7u SAMN6-adenosine-methyltransferase 70 kDa subunit / 0.659
2eg5 SAH7-methylxanthosine synthase 1 / 0.658
4gek GEKCarboxy-S-adenosyl-L-methionine synthase / 0.658
4iwn GEKCarboxy-S-adenosyl-L-methionine synthase / 0.656
2a14 SAHIndolethylamine N-methyltransferase 2.1.1.49 0.654
3eey SAMrRNA methylase / 0.654
4pyo SAHCatechol O-methyltransferase 2.1.1.6 0.654
3egv SAHRibosomal protein L11 methyltransferase 2.1.1 0.652
3ldg SAHUncharacterized protein / 0.652
2eju SAHtRNA (guanine(26)-N(2))-dimethyltransferase / 0.650
4gf5 SAHCalS11 / 0.650
5dwq SFGHistone-arginine methyltransferase CARM1 / 0.650
5jdz SAHMethyl transferase / 0.650