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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
4rto SFG DNA adenine methylase 2.1.1.72

Complex with similar interaction patterns:

PDB ID HET Uniprot Name EC Number Binding Mode
Similarity		 Align
4rto SFGDNA adenine methylase 2.1.1.72 0.876
4rtj SFGDNA adenine methylase 2.1.1.72 0.837
4rtm SAMDNA adenine methylase 2.1.1.72 0.803
4rtk SAHDNA adenine methylase 2.1.1.72 0.802
2ore SAHDNA adenine methylase 2.1.1.72 0.786
4rtr SAMDNA adenine methylase 2.1.1.72 0.756
2g1p SAHDNA adenine methylase 2.1.1.72 0.755
4rtp SAMDNA adenine methylase 2.1.1.72 0.753
4gol SA8DNA adenine methylase 2.1.1.72 0.750
4gbe SAHDNA adenine methylase 2.1.1.72 0.747
4rts SAMDNA adenine methylase 2.1.1.72 0.747
1yf3 SAHDNA adenine methylase / 0.744
4rtq SAHDNA adenine methylase 2.1.1.72 0.741
2dpm SAMModification methylase DpnIIA 2.1.1.72 0.739
4rtn SAHDNA adenine methylase 2.1.1.72 0.739
1eg2 MTAModification methylase RsrI 2.1.1.72 0.717
3tm4 SAMUncharacterized protein / 0.717
1uay ADNOxidoreductase / 0.710
1nw6 SFGModification methylase RsrI 2.1.1.72 0.709
3axs SFGtRNA (guanine(26)-N(2)/guanine(27)-N(2))-dimethyltransferase / 0.702
1nw5 SAMModification methylase RsrI 2.1.1.72 0.701
2uyh SAHModification methylase HhaI 2.1.1.37 0.701
1boo SAHModification methylase PvuII 2.1.1.113 0.697
2i9k SAHModification methylase HhaI 2.1.1.37 0.697
2yx1 SFGtRNA (guanine(37)-N1)-methyltransferase Trm5b 2.1.1.228 0.693
3bgi SAHThiopurine S-methyltransferase 2.1.1.67 0.693
4rtl SFGDNA adenine methylase 2.1.1.72 0.692
5e72 SAMN2, N2-dimethylguanosine tRNA methyltransferase / 0.690
4fzv SAM5-methylcytosine rRNA methyltransferase NSUN4 2.1.1 0.688
2c7q SAHModification methylase HhaI 2.1.1.37 0.683
3ldg SAHUncharacterized protein / 0.682
3tlj SAHUncharacterized protein / 0.679
3tm5 SFGUncharacterized protein / 0.675
10mh SAHModification methylase HhaI 2.1.1.37 0.674
5e9w SAHmRNA cap guanine-N7 methyltransferase 2.1.1.56 0.673
2yxl SFG450aa long hypothetical fmu protein / 0.672
4xcx SAHSmall RNA 2'-O-methyltransferase / 0.672
4u7t SAHDNA (cytosine-5)-methyltransferase 3A 2.1.1.37 0.670
2zcj SAHModification methylase HhaI 2.1.1.37 0.669
3mht SAHModification methylase HhaI 2.1.1.37 0.668
2z6u SAHModification methylase HhaI 2.1.1.37 0.667
2zif SAMMethyltransferase / 0.666
3epp SFGmRNA cap guanine-N7 methyltransferase 2.1.1.56 0.665
2y1w SFGHistone-arginine methyltransferase CARM1 / 0.664
4fr0 SAMArsenic methyltransferase / 0.664
1adf TADAlcohol dehydrogenase E chain 1.1.1.1 0.663
1jqd SAHHistamine N-methyltransferase 2.1.1.8 0.663
4dkj SAHCytosine-specific methyltransferase / 0.661
2bh2 SAH23S rRNA (uracil(1939)-C(5))-methyltransferase RlmD / 0.660
7mht SAHModification methylase HhaI 2.1.1.37 0.660
1wg8 SAMRibosomal RNA small subunit methyltransferase H / 0.659
3b3f SAHHistone-arginine methyltransferase CARM1 / 0.659
5e8j SAHmRNA cap guanine-N7 methyltransferase 2.1.1.56 0.659
1skm SAHModification methylase HhaI 2.1.1.37 0.658
4ymg SAMPutative SAM-dependent O-methyltranferase / 0.658
3s1s SAHRestriction endonuclease BpuSI / 0.657
2okc SAMProbable type I restriction enzyme BthVORF4518P M protein 2.1.1.72 0.656
4mht SAHModification methylase HhaI 2.1.1.37 0.656
4nec SAHPutative SAM-dependent methyltransferase / 0.655
2hmv ADPKtr system potassium uptake protein A / 0.652
2zzn SAMtRNA (guanine(37)-N1)-methyltransferase Trm5b 2.1.1.228 0.651
4eqg A5AHistidine triad nucleotide-binding protein 1 3 0.651
3axt SAMtRNA (guanine(26)-N(2)/guanine(27)-N(2))-dimethyltransferase / 0.650
4ft4 SAHDNA (cytosine-5)-methyltransferase 1 2.1.1.37 0.650