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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
4rtl SFG DNA adenine methylase 2.1.1.72

Complex with similar interaction patterns:

PDB ID HET Uniprot Name EC Number Binding Mode
Similarity		 Align
4rtl SFGDNA adenine methylase 2.1.1.72 0.891
2dpm SAMModification methylase DpnIIA 2.1.1.72 0.769
2g1p SAHDNA adenine methylase 2.1.1.72 0.764
1yf3 SAHDNA adenine methylase / 0.763
4gbe SAHDNA adenine methylase 2.1.1.72 0.749
4rtk SAHDNA adenine methylase 2.1.1.72 0.743
4rtj SFGDNA adenine methylase 2.1.1.72 0.739
5il2 SAHN6-adenosine-methyltransferase 70 kDa subunit / 0.725
1nw5 SAMModification methylase RsrI 2.1.1.72 0.724
1boo SAHModification methylase PvuII 2.1.1.113 0.711
4rtm SAMDNA adenine methylase 2.1.1.72 0.704
3qv2 SAH5-cytosine DNA methyltransferase / 0.702
2ore SAHDNA adenine methylase 2.1.1.72 0.700
2cww SAHUncharacterized protein / 0.697
2yx1 SFGtRNA (guanine(37)-N1)-methyltransferase Trm5b 2.1.1.228 0.695
4rto SFGDNA adenine methylase 2.1.1.72 0.692
1eg2 MTAModification methylase RsrI 2.1.1.72 0.690
1nw6 SFGModification methylase RsrI 2.1.1.72 0.690
5k7u SAMN6-adenosine-methyltransferase 70 kDa subunit / 0.688
9mht SAHModification methylase HhaI 2.1.1.37 0.688
5mht SAHModification methylase HhaI 2.1.1.37 0.685
4fzv SAM5-methylcytosine rRNA methyltransferase NSUN4 2.1.1 0.683
4rtp SAMDNA adenine methylase 2.1.1.72 0.683
4gol SA8DNA adenine methylase 2.1.1.72 0.682
1wg8 SAMRibosomal RNA small subunit methyltransferase H / 0.681
7mht SAHModification methylase HhaI 2.1.1.37 0.679
3eey SAMrRNA methylase / 0.673
10mh SAHModification methylase HhaI 2.1.1.37 0.672
3tr6 SAHO-methyltransferase / 0.672
2uyh SAHModification methylase HhaI 2.1.1.37 0.669
3lkz SFGGenome polyprotein / 0.667
4rtn SAHDNA adenine methylase 2.1.1.72 0.667
3emd SFGMethyltransferase / 0.666
4nec SAHPutative SAM-dependent methyltransferase / 0.664
2px2 SAHGenome polyprotein 2.7.7.48 0.663
2pxa SAHGenome polyprotein 2.7.7.48 0.663
4rtq SAHDNA adenine methylase 2.1.1.72 0.663
1uay ADNOxidoreductase / 0.662
4mht SAHModification methylase HhaI 2.1.1.37 0.662
4n48 SAMCap-specific mRNA (nucleoside-2'-O-)-methyltransferase 1 2.1.1.57 0.662
2yxl SFG450aa long hypothetical fmu protein / 0.660
3p8z SAHGenome polyprotein 2.1.1.56 0.660
4blv SAMRibosomal RNA large subunit methyltransferase J / 0.660
3a4t SFGtRNA (cytosine(48)-C(5))-methyltransferase 2.1.1 0.658
4u7t SAHDNA (cytosine-5)-methyltransferase 3A 2.1.1.37 0.658
5ccb SAHtRNA (adenine(58)-N(1))-methyltransferase catalytic subunit TRMT61A 2.1.1.220 0.658
4ctj SAMGenome polyprotein / 0.657
4dkj SAHCytosine-specific methyltransferase / 0.657
2px5 SAHGenome polyprotein 2.7.7.48 0.656
3c3y SAHO-methyltransferase / 0.655
2bh2 SAH23S rRNA (uracil(1939)-C(5))-methyltransferase RlmD / 0.654
3v97 SAHRibosomal RNA large subunit methyltransferase K/L 2.1.1.173 0.654
3ldg SAHUncharacterized protein / 0.653
4rts SAMDNA adenine methylase 2.1.1.72 0.653
3swr SFGDNA (cytosine-5)-methyltransferase 1 2.1.1.37 0.652
4rtr SAMDNA adenine methylase 2.1.1.72 0.652
5ccx SAHtRNA (adenine(58)-N(1))-methyltransferase catalytic subunit TRMT61A 2.1.1.220 0.652
3pt6 SAHDNA (cytosine-5)-methyltransferase 1 2.1.1.37 0.651