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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
5mht SAH Modification methylase HhaI 2.1.1.37

Complex with similar interaction patterns:

PDB ID HET Uniprot Name EC Number Binding Mode
Similarity		 Align
5mht SAHModification methylase HhaI 2.1.1.37 0.956
9mht SAHModification methylase HhaI 2.1.1.37 0.919
7mht SAHModification methylase HhaI 2.1.1.37 0.890
10mh SAHModification methylase HhaI 2.1.1.37 0.883
2uyh SAHModification methylase HhaI 2.1.1.37 0.879
8mht SAHModification methylase HhaI 2.1.1.37 0.837
2c7q SAHModification methylase HhaI 2.1.1.37 0.832
1skm SAHModification methylase HhaI 2.1.1.37 0.817
2zcj SAHModification methylase HhaI 2.1.1.37 0.791
2z6u SAHModification methylase HhaI 2.1.1.37 0.784
3mht SAHModification methylase HhaI 2.1.1.37 0.773
3qv2 SAH5-cytosine DNA methyltransferase / 0.766
4dkj SAHCytosine-specific methyltransferase / 0.766
1mht SAHModification methylase HhaI 2.1.1.37 0.757
2i9k SAHModification methylase HhaI 2.1.1.37 0.751
4mht SAHModification methylase HhaI 2.1.1.37 0.745
1g60 SAMModification methylase MboII 2.1.1.72 0.733
2hmy SAMModification methylase HhaI 2.1.1.37 0.732
1nw5 SAMModification methylase RsrI 2.1.1.72 0.730
1fjx SAHModification methylase HhaI 2.1.1.37 0.717
4poo SAMPutative RNA methylase / 0.709
2zif SAMMethyltransferase / 0.706
1boo SAHModification methylase PvuII 2.1.1.113 0.695
3swr SFGDNA (cytosine-5)-methyltransferase 1 2.1.1.37 0.692
2cww SAHUncharacterized protein / 0.690
3tm4 SAMUncharacterized protein / 0.690
2dpm SAMModification methylase DpnIIA 2.1.1.72 0.688
4rtl SFGDNA adenine methylase 2.1.1.72 0.685
5e9w SAHmRNA cap guanine-N7 methyltransferase 2.1.1.56 0.685
2bh2 SAH23S rRNA (uracil(1939)-C(5))-methyltransferase RlmD / 0.683
4rtj SFGDNA adenine methylase 2.1.1.72 0.683
4u7t SAHDNA (cytosine-5)-methyltransferase 3A 2.1.1.37 0.681
1nw6 SFGModification methylase RsrI 2.1.1.72 0.680
3fri SAH16S rRNA methylase / 0.680
4nec SAHPutative SAM-dependent methyltransferase / 0.679
4rtk SAHDNA adenine methylase 2.1.1.72 0.677
3eey SAMrRNA methylase / 0.676
1wg8 SAMRibosomal RNA small subunit methyltransferase H / 0.673
2okc SAMProbable type I restriction enzyme BthVORF4518P M protein 2.1.1.72 0.673
3a27 SAMtRNA(Phe) (4-demethylwyosine(37)-C(7)) aminocarboxypropyltransferase / 0.672
4gbe SAHDNA adenine methylase 2.1.1.72 0.671
4wxx SAHDNA (cytosine-5)-methyltransferase 1 2.1.1.37 0.671
5jr3 SAHCarminomycin 4-O-methyltransferase DnrK 2.1.1.292 0.671
4o29 SAHProtein-L-isoaspartate O-methyltransferase / 0.669
4dmg SAMUncharacterized protein / 0.667
4ymg SAMPutative SAM-dependent O-methyltranferase / 0.666
2bzg SAHThiopurine S-methyltransferase 2.1.1.67 0.665
1yf3 SAHDNA adenine methylase / 0.664
2f8l SAMLmo1582 protein / 0.663
3ldf SAHUncharacterized protein / 0.663
4rtm SAMDNA adenine methylase 2.1.1.72 0.663
2g1p SAHDNA adenine methylase 2.1.1.72 0.662
5e72 SAMN2, N2-dimethylguanosine tRNA methyltransferase / 0.662
1qaq SFGrRNA adenine N-6-methyltransferase 2.1.1.184 0.659
3pt6 SAHDNA (cytosine-5)-methyltransferase 1 2.1.1.37 0.659
2a14 SAHIndolethylamine N-methyltransferase 2.1.1.49 0.658
2zzn SAMtRNA (guanine(37)-N1)-methyltransferase Trm5b 2.1.1.228 0.657
3lst SAHCalO1 / 0.657
3tlj SAHUncharacterized protein / 0.657
2pxa SAHGenome polyprotein 2.7.7.48 0.656
2p35 SAHTrans-aconitate 2-methyltransferase / 0.655
4mwz SAMPhosphoethanolamine N-methyltransferase, putative / 0.655
3n1s 5GPPurine nucleoside phosphoramidase / 0.654
1qzz SAMAclacinomycin 10-hydroxylase RdmB 4.1.1 0.653
1uay ADNOxidoreductase / 0.653
4pyo SAHCatechol O-methyltransferase 2.1.1.6 0.653
5il2 SAHN6-adenosine-methyltransferase 70 kDa subunit / 0.653
3lby SAHUncharacterized protein / 0.652
4yv2 S4MSpermidine synthase, putative / 0.651
3c3y SAHO-methyltransferase / 0.650