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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
3tm5 SFG Uncharacterized protein

Complex with similar interaction patterns:

PDB ID HET Uniprot Name EC Number Binding Mode
Similarity		 Align
3tm5 SFGUncharacterized protein / 1.016
3tm4 SAMUncharacterized protein / 0.909
3tlj SAHUncharacterized protein / 0.822
2f8l SAMLmo1582 protein / 0.813
2okc SAMProbable type I restriction enzyme BthVORF4518P M protein 2.1.1.72 0.770
1nw5 SAMModification methylase RsrI 2.1.1.72 0.752
4rtk SAHDNA adenine methylase 2.1.1.72 0.749
3ldg SAHUncharacterized protein / 0.738
3qow SAMHistone-lysine N-methyltransferase, H3 lysine-79 specific 2.1.1.43 0.716
2c7q SAHModification methylase HhaI 2.1.1.37 0.715
4rtm SAMDNA adenine methylase 2.1.1.72 0.708
3qv2 SAH5-cytosine DNA methyltransferase / 0.706
2yx1 SFGtRNA (guanine(37)-N1)-methyltransferase Trm5b 2.1.1.228 0.702
2dpm SAMModification methylase DpnIIA 2.1.1.72 0.700
1skm SAHModification methylase HhaI 2.1.1.37 0.699
4rtj SFGDNA adenine methylase 2.1.1.72 0.695
1mht SAHModification methylase HhaI 2.1.1.37 0.694
5dxj SFGHistone-arginine methyltransferase CARM1 / 0.694
2uyh SAHModification methylase HhaI 2.1.1.37 0.690
3sr4 TT8Histone-lysine N-methyltransferase, H3 lysine-79 specific 2.1.1.43 0.686
3swr SFGDNA (cytosine-5)-methyltransferase 1 2.1.1.37 0.686
5dxa SFGHistone-arginine methyltransferase CARM1 / 0.683
1bc5 SAHChemotaxis protein methyltransferase 2.1.1.80 0.682
2y1x SAHHistone-arginine methyltransferase CARM1 / 0.682
2i9k SAHModification methylase HhaI 2.1.1.37 0.680
2zif SAMMethyltransferase / 0.679
3axt SAMtRNA (guanine(26)-N(2)/guanine(27)-N(2))-dimethyltransferase / 0.679
1boo SAHModification methylase PvuII 2.1.1.113 0.677
3mht SAHModification methylase HhaI 2.1.1.37 0.675
4rto SFGDNA adenine methylase 2.1.1.72 0.675
5e9w SAHmRNA cap guanine-N7 methyltransferase 2.1.1.56 0.674
1g60 SAMModification methylase MboII 2.1.1.72 0.673
7mht SAHModification methylase HhaI 2.1.1.37 0.673
2wa2 SAMGenome polyprotein / 0.671
1uay ADNOxidoreductase / 0.670
3a4t SFGtRNA (cytosine(48)-C(5))-methyltransferase 2.1.1 0.670
3lst SAHCalO1 / 0.670
4xcx SAHSmall RNA 2'-O-methyltransferase / 0.668
9mht SAHModification methylase HhaI 2.1.1.37 0.668
3a25 SAMtRNA(Phe) (4-demethylwyosine(37)-C(7)) aminocarboxypropyltransferase / 0.666
4rtr SAMDNA adenine methylase 2.1.1.72 0.666
2np7 NEAModification methylase TaqI 2.1.1.72 0.665
2yxl SFG450aa long hypothetical fmu protein / 0.665
3a27 SAMtRNA(Phe) (4-demethylwyosine(37)-C(7)) aminocarboxypropyltransferase / 0.665
3p97 SAMGenome polyprotein 2.1.1.56 0.664
2g1p SAHDNA adenine methylase 2.1.1.72 0.662
2vdv SAMtRNA (guanine-N(7)-)-methyltransferase / 0.662
5dwq SFGHistone-arginine methyltransferase CARM1 / 0.661
2zcj SAHModification methylase HhaI 2.1.1.37 0.659
4mht SAHModification methylase HhaI 2.1.1.37 0.659
1fjx SAHModification methylase HhaI 2.1.1.37 0.658
2p35 SAHTrans-aconitate 2-methyltransferase / 0.658
3epp SFGmRNA cap guanine-N7 methyltransferase 2.1.1.56 0.658
10mh SAHModification methylase HhaI 2.1.1.37 0.656
2ore SAHDNA adenine methylase 2.1.1.72 0.656
3dmg SAHProbable ribosomal RNA small subunit methyltransferase / 0.652
3p8z SAHGenome polyprotein 2.1.1.56 0.651