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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
1aqi SAH Modification methylase TaqI 2.1.1.72

Complex with similar interaction patterns:

PDB ID HET Uniprot Name EC Number Binding Mode
Similarity		 Align
1aqi SAHModification methylase TaqI 2.1.1.72 0.877
2np6 NEAModification methylase TaqI 2.1.1.72 0.729
1g38 NEAModification methylase TaqI 2.1.1.72 0.725
2ih2 NEAModification methylase TaqI 2.1.1.72 0.725
2ibt NEAModification methylase TaqI 2.1.1.72 0.710
5je4 SAHMethyl transferase / 0.703
4obw SAM2-methoxy-6-polyprenyl-1,4-benzoquinol methylase, mitochondrial / 0.701
4wxx SAHDNA (cytosine-5)-methyltransferase 1 2.1.1.37 0.698
4fp9 SAM5-methylcytosine rRNA methyltransferase NSUN4 2.1.1 0.697
1sqf SAMRibosomal RNA small subunit methyltransferase B 2.1.1.176 0.691
2ih5 NEAModification methylase TaqI 2.1.1.72 0.688
2np7 NEAModification methylase TaqI 2.1.1.72 0.688
4fzv SAM5-methylcytosine rRNA methyltransferase NSUN4 2.1.1 0.685
5jdz SAHMethyl transferase / 0.685
3ldg SAHUncharacterized protein / 0.680
3tm4 SAMUncharacterized protein / 0.676
2br5 SAHCephalosporin hydroxylase CmcI / 0.675
3tos SAHCalS11 / 0.669
5e72 SAMN2, N2-dimethylguanosine tRNA methyltransferase / 0.668
2yxl SFG450aa long hypothetical fmu protein / 0.667
3grr SAHProbable ribosomal RNA small subunit methyltransferase A / 0.667
3rw9 DSHSpermidine synthase 2.5.1.16 0.667
2f8l SAMLmo1582 protein / 0.666
3nmu SAMFibrillarin-like rRNA/tRNA 2'-O-methyltransferase / 0.666
4er6 AW2Histone-lysine N-methyltransferase, H3 lysine-79 specific 2.1.1.43 0.665
2nyu SAMrRNA methyltransferase 2, mitochondrial / 0.664
4gqb 0XUProtein arginine N-methyltransferase 5 / 0.663
2dpm SAMModification methylase DpnIIA 2.1.1.72 0.662
4nec SAHPutative SAM-dependent methyltransferase / 0.662
1ve3 SAMUncharacterized protein / 0.660
2bzg SAHThiopurine S-methyltransferase 2.1.1.67 0.660
1mht SAHModification methylase HhaI 2.1.1.37 0.657
1wg8 SAMRibosomal RNA small subunit methyltransferase H / 0.657
1qan SAHrRNA adenine N-6-methyltransferase 2.1.1.184 0.656
2o06 MTASpermidine synthase 2.5.1.16 0.656
3pt6 SAHDNA (cytosine-5)-methyltransferase 1 2.1.1.37 0.656
3pgx NADUncharacterized NAD-dependent oxidoreductase MAP_4146 / 0.655
4yv2 S4MSpermidine synthase, putative / 0.655
3wds NADNADH-dependent quinuclidinone reductase / 0.654
4dcm SAMRibosomal RNA large subunit methyltransferase G 2.1.1.174 0.652
4n48 SAMCap-specific mRNA (nucleoside-2'-O-)-methyltransferase 1 2.1.1.57 0.652
4iv8 SAMPhosphoethanolamine N-methyltransferase,putative / 0.651
4yac NAIC alpha-dehydrogenase / 0.651
2o07 MTASpermidine synthase 2.5.1.16 0.650
2okc SAMProbable type I restriction enzyme BthVORF4518P M protein 2.1.1.72 0.650
2ore SAHDNA adenine methylase 2.1.1.72 0.650
3pt9 SAHDNA (cytosine-5)-methyltransferase 1 2.1.1.37 0.650
4o29 SAHProtein-L-isoaspartate O-methyltransferase / 0.650