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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
1ri4 SAM mRNA cap guanine-N7 methyltransferase 2.1.1.56

Complex with similar interaction patterns:

PDB ID HET Uniprot Name EC Number Binding Mode
Similarity		 Align
1ri4 SAMmRNA cap guanine-N7 methyltransferase 2.1.1.56 0.988
1z3c SA8mRNA cap guanine-N7 methyltransferase 2.1.1.56 0.880
2hv9 SFGmRNA cap guanine-N7 methyltransferase 2.1.1.56 0.819
1ri3 SAHmRNA cap guanine-N7 methyltransferase 2.1.1.56 0.805
4mwz SAMPhosphoethanolamine N-methyltransferase, putative / 0.787
4fgz SAHPhosphoethanolamine N-methyltransferase / 0.760
4iv0 SAMPhosphoethanolamine N-methyltransferase, putative / 0.753
3uj8 SFGPhosphoethanolamine N-methyltransferase / 0.752
3uj7 SAMPhosphoethanolamine N-methyltransferase / 0.751
4r6x SAHPhosphoethanolamine N-methyltransferase / 0.737
3fri SAH16S rRNA methylase / 0.733
5e8j SAHmRNA cap guanine-N7 methyltransferase 2.1.1.56 0.732
3epp SFGmRNA cap guanine-N7 methyltransferase 2.1.1.56 0.724
5e9w SAHmRNA cap guanine-N7 methyltransferase 2.1.1.56 0.723
3b5i SAHIndole-3-acetate O-methyltransferase 1 / 0.722
3ou2 SAHSAM-dependent methyltransferase / 0.720
4qtu SAM18S rRNA (guanine(1575)-N(7))-methyltransferase / 0.711
3dlc SAMSAM (And some other nucleotide) binding motif:Generic methyltransferase / 0.705
4ckb SAHmRNA-capping enzyme catalytic subunit 2.1.1.56 0.705
4ckc SAHmRNA-capping enzyme catalytic subunit 2.1.1.56 0.705
3p9k SAHCaffeic acid O-methyltransferase / 0.704
5je2 SAHMethyl transferase / 0.702
2a14 SAHIndolethylamine N-methyltransferase 2.1.1.49 0.701
3lst SAHCalO1 / 0.701
2zwa SAHtRNA wybutosine-synthesizing protein 4 2.1.1.290 0.698
2p35 SAHTrans-aconitate 2-methyltransferase / 0.696
4qdk SAHMagnesium-protoporphyrin O-methyltransferase 2.1.1.11 0.696
1nbh SAMGlycine N-methyltransferase 2.1.1.20 0.694
3bgv SAHmRNA cap guanine-N7 methyltransferase 2.1.1.56 0.694
3dh0 SAMUncharacterized protein / 0.692
3p9c SAHCaffeic acid O-methyltransferase / 0.691
4pne SAHMethyltransferase-like protein / 0.688
5epe SAHUncharacterized protein / 0.687
1r00 SAHAclacinomycin 10-hydroxylase RdmB 4.1.1 0.685
4kdr SAHUbiquinone biosynthesis O-methyltransferase / 0.684
4iv8 SAMPhosphoethanolamine N-methyltransferase,putative / 0.682
4azw SAMO-antigen chain terminator bifunctional methyltransferase/kinase WbdD / 0.681
2i62 SAHNicotinamide N-methyltransferase 2.1.1.1 0.678
2yqz SAMUncharacterized protein / 0.678
3bus SAHDemethylrebeccamycin-D-glucose O-methyltransferase / 0.676
3lcc SAHThiocyanate methyltransferase 1 / 0.672
3reo SAH(Iso)eugenol O-methyltransferase 2.1.1.146 0.672
5je3 SAHMethyl transferase / 0.671
1kia SAMGlycine N-methyltransferase 2.1.1.20 0.670
2aot SAHHistamine N-methyltransferase 2.1.1.8 0.670
1jqd SAHHistamine N-methyltransferase 2.1.1.8 0.669
4hh4 SAHCcbJ / 0.665
3kkz SAMUncharacterized protein / 0.664
3a4t SFGtRNA (cytosine(48)-C(5))-methyltransferase 2.1.1 0.663
4rvd SAMD-mycarose 3-C-methyltransferase / 0.663
4kvz SAHPtnL protein / 0.661
3o7w SAMLeucine carboxyl methyltransferase 1 2.1.1.233 0.660
2qe6 SAMUncharacterized protein / 0.659
1nw3 SAMHistone-lysine N-methyltransferase, H3 lysine-79 specific 2.1.1.43 0.657
2zfu SAHRibosomal RNA-processing protein 8 / 0.657
1ori SAHProtein arginine N-methyltransferase 1 / 0.656
1y8q ATPSUMO-activating enzyme subunit 2 6.3.2 0.656
3t7s SAMUncharacterized protein / 0.655
4lwp SAHArginine N-methyltransferase, putative / 0.655
4kwc SAHMethyltransferase domain family / 0.653
1x1c SAHC-20 methyltransferase / 0.652
1xdu SFGAclacinomycin 10-hydroxylase RdmB 4.1.1 0.651
1bc5 SAHChemotaxis protein methyltransferase 2.1.1.80 0.650
5jr3 SAHCarminomycin 4-O-methyltransferase DnrK 2.1.1.292 0.650