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
PDB ID | HET | Uniprot Name | EC Number |
---|---|---|---|
2p35 | SAH | Trans-aconitate 2-methyltransferase |
PDB ID | HET | Uniprot Name | EC Number | Binding Mode Similarity |
Align |
---|---|---|---|---|---|
2p35 | SAH | Trans-aconitate 2-methyltransferase | / | 0.917 | |
2yqz | SAM | Uncharacterized protein | / | 0.798 | |
5je4 | SAH | Methyl transferase | / | 0.787 | |
4mwz | SAM | Phosphoethanolamine N-methyltransferase, putative | / | 0.769 | |
5je3 | SAH | Methyl transferase | / | 0.767 | |
5jdz | SAH | Methyl transferase | / | 0.764 | |
3uj8 | SFG | Phosphoethanolamine N-methyltransferase | / | 0.763 | |
3dlc | SAM | SAM (And some other nucleotide) binding motif:Generic methyltransferase | / | 0.762 | |
5je2 | SAH | Methyl transferase | / | 0.761 | |
4fgz | SAH | Phosphoethanolamine N-methyltransferase | / | 0.760 | |
2nxe | SAM | Ribosomal protein L11 methyltransferase | 2.1.1 | 0.755 | |
3lcc | SAH | Thiocyanate methyltransferase 1 | / | 0.755 | |
4iv0 | SAM | Phosphoethanolamine N-methyltransferase, putative | / | 0.750 | |
4lwp | SAH | Arginine N-methyltransferase, putative | / | 0.750 | |
4iwn | GEK | Carboxy-S-adenosyl-L-methionine synthase | / | 0.742 | |
4gek | GEK | Carboxy-S-adenosyl-L-methionine synthase | / | 0.741 | |
4kwc | SAH | Methyltransferase domain family | / | 0.740 | |
4dcm | SAM | Ribosomal RNA large subunit methyltransferase G | 2.1.1.174 | 0.736 | |
5e8j | SAH | mRNA cap guanine-N7 methyltransferase | 2.1.1.56 | 0.736 | |
2qe6 | SAM | Uncharacterized protein | / | 0.734 | |
2c7q | SAH | Modification methylase HhaI | 2.1.1.37 | 0.733 | |
4c04 | SFG | Protein arginine N-methyltransferase 6 | / | 0.733 | |
3fri | SAH | 16S rRNA methylase | / | 0.732 | |
3epp | SFG | mRNA cap guanine-N7 methyltransferase | 2.1.1.56 | 0.731 | |
3o7w | SAM | Leucine carboxyl methyltransferase 1 | 2.1.1.233 | 0.731 | |
3go4 | SAH | Uncharacterized protein | / | 0.730 | |
3sr4 | TT8 | Histone-lysine N-methyltransferase, H3 lysine-79 specific | 2.1.1.43 | 0.729 | |
2hv9 | SFG | mRNA cap guanine-N7 methyltransferase | 2.1.1.56 | 0.727 | |
4qpp | SAH | Protein arginine N-methyltransferase 6 | / | 0.727 | |
5bxy | SAH | Putative RNA methylase family UPF0020 | / | 0.727 | |
1rjd | SAM | Leucine carboxyl methyltransferase 1 | 2.1.1.233 | 0.726 | |
3b3f | SAH | Histone-arginine methyltransferase CARM1 | / | 0.726 | |
2gs9 | SAH | Uncharacterized protein | / | 0.725 | |
3uj7 | SAM | Phosphoethanolamine N-methyltransferase | / | 0.725 | |
4iv8 | SAM | Phosphoethanolamine N-methyltransferase,putative | / | 0.725 | |
5dwq | SFG | Histone-arginine methyltransferase CARM1 | / | 0.725 | |
5dx1 | SFG | Histone-arginine methyltransferase CARM1 | / | 0.725 | |
2i62 | SAH | Nicotinamide N-methyltransferase | 2.1.1.1 | 0.724 | |
2y1w | SFG | Histone-arginine methyltransferase CARM1 | / | 0.724 | |
2vdv | SAM | tRNA (guanine-N(7)-)-methyltransferase | / | 0.722 | |
3g07 | SAM | 7SK snRNA methylphosphate capping enzyme | 2.1.1 | 0.720 | |
5epe | SAH | Uncharacterized protein | / | 0.720 | |
1qan | SAH | rRNA adenine N-6-methyltransferase | 2.1.1.184 | 0.719 | |
5e9w | SAH | mRNA cap guanine-N7 methyltransferase | 2.1.1.56 | 0.719 | |
1y8q | ATP | SUMO-activating enzyme subunit 2 | 6.3.2 | 0.717 | |
4hc4 | SAH | Protein arginine N-methyltransferase 6 | / | 0.715 | |
2y1x | SAH | Histone-arginine methyltransferase CARM1 | / | 0.714 | |
4nec | SAH | Putative SAM-dependent methyltransferase | / | 0.714 | |
3t7s | SAM | Uncharacterized protein | / | 0.713 | |
5bp9 | SAH | Putative methyltransferase protein | / | 0.713 | |
2zfu | SAH | Ribosomal RNA-processing protein 8 | / | 0.711 | |
3bus | SAH | Demethylrebeccamycin-D-glucose O-methyltransferase | / | 0.711 | |
4qtu | SAM | 18S rRNA (guanine(1575)-N(7))-methyltransferase | / | 0.711 | |
3grr | SAH | Probable ribosomal RNA small subunit methyltransferase A | / | 0.710 | |
4azw | SAM | O-antigen chain terminator bifunctional methyltransferase/kinase WbdD | / | 0.710 | |
5bp7 | SAH | SAM-dependent methyltransferase | / | 0.710 | |
1sqf | SAM | Ribosomal RNA small subunit methyltransferase B | 2.1.1.176 | 0.709 | |
4krh | SAM | Phosphoethanolamine N-methyltransferase 2 | / | 0.709 | |
3egv | SAH | Ribosomal protein L11 methyltransferase | 2.1.1 | 0.708 | |
1ri3 | SAH | mRNA cap guanine-N7 methyltransferase | 2.1.1.56 | 0.707 | |
5dx8 | SFG | Histone-arginine methyltransferase CARM1 | / | 0.707 | |
3pvz | NAD | UDP-N-acetylglucosamine 4,6-dehydratase | / | 0.705 | |
2aot | SAH | Histamine N-methyltransferase | 2.1.1.8 | 0.704 | |
5fa8 | SAM | Ribosomal protein L11 methyltransferase, putative | / | 0.704 | |
1qao | SAM | rRNA adenine N-6-methyltransferase | 2.1.1.184 | 0.703 | |
3mte | SAM | 16S rRNA (adenine(1408)-N(1))-methyltransferase | 2.1.1.180 | 0.703 | |
4o29 | SAH | Protein-L-isoaspartate O-methyltransferase | / | 0.702 | |
7mht | SAH | Modification methylase HhaI | 2.1.1.37 | 0.701 | |
1z3c | SA8 | mRNA cap guanine-N7 methyltransferase | 2.1.1.56 | 0.700 | |
3kkz | SAM | Uncharacterized protein | / | 0.698 | |
3p2e | SAH | 16S rRNA (adenine(1408)-N(1))-methyltransferase | 2.1.1.180 | 0.698 | |
4qdk | SAH | Magnesium-protoporphyrin O-methyltransferase | 2.1.1.11 | 0.698 | |
1orh | SAH | Protein arginine N-methyltransferase 1 | / | 0.697 | |
3dmh | SAM | Probable ribosomal RNA small subunit methyltransferase | / | 0.697 | |
3iei | SAH | Leucine carboxyl methyltransferase 1 | 2.1.1.233 | 0.697 | |
4xcx | SAH | Small RNA 2'-O-methyltransferase | / | 0.697 | |
1bc5 | SAH | Chemotaxis protein methyltransferase | 2.1.1.80 | 0.696 | |
1ri4 | SAM | mRNA cap guanine-N7 methyltransferase | 2.1.1.56 | 0.696 | |
3grv | ADN | Probable ribosomal RNA small subunit methyltransferase A | / | 0.695 | |
3pb3 | SAH | 16S rRNA (adenine(1408)-N(1))-methyltransferase | 2.1.1.180 | 0.695 | |
4gqb | 0XU | Protein arginine N-methyltransferase 5 | / | 0.695 | |
3sso | SAH | Mycinamicin VI 2''-O-methyltransferase | / | 0.694 | |
1bdb | NAD | Cis-2,3-dihydrobiphenyl-2,3-diol dehydrogenase | / | 0.693 | |
3kpj | SAH | Phenylethanolamine N-methyltransferase | 2.1.1.28 | 0.693 | |
4hh4 | SAH | CcbJ | / | 0.693 | |
4yuz | S4M | Spermidine synthase, putative | / | 0.693 | |
3cbg | SAH | O-methyltransferase | / | 0.692 | |
4uy6 | SAH | Histidine N-alpha-methyltransferase | / | 0.692 | |
3bwc | SAM | Spermidine synthase, putative | / | 0.691 | |
2zwv | SAH | Probable ribosomal RNA small subunit methyltransferase | / | 0.690 | |
3b5i | SAH | Indole-3-acetate O-methyltransferase 1 | / | 0.690 | |
3lcv | SAM | 16S rRNA (guanine(1405)-N(7))-methyltransferase | 2.1.1.179 | 0.690 | |
3icp | NAD | NAD-dependent epimerase/dehydratase | / | 0.689 | |
3qow | SAM | Histone-lysine N-methyltransferase, H3 lysine-79 specific | 2.1.1.43 | 0.689 | |
3p9k | SAH | Caffeic acid O-methyltransferase | / | 0.688 | |
5ccx | SAH | tRNA (adenine(58)-N(1))-methyltransferase catalytic subunit TRMT61A | 2.1.1.220 | 0.688 | |
1nbi | SAM | Glycine N-methyltransferase | 2.1.1.20 | 0.686 | |
2yvl | SAM | tRNA (adenine(58)-N(1))-methyltransferase TrmI | / | 0.686 | |
3wds | NAD | NADH-dependent quinuclidinone reductase | / | 0.686 | |
4nbu | NAI | 3-oxoacyl-(Acyl-carrier-protein) reductase | / | 0.685 | |
1ori | SAH | Protein arginine N-methyltransferase 1 | / | 0.684 | |
4yac | NAI | C alpha-dehydrogenase | / | 0.684 | |
3a25 | SAM | tRNA(Phe) (4-demethylwyosine(37)-C(7)) aminocarboxypropyltransferase | / | 0.683 | |
3c3y | SAH | O-methyltransferase | / | 0.683 | |
3v97 | SAH | Ribosomal RNA large subunit methyltransferase K/L | 2.1.1.173 | 0.683 | |
1jqd | SAH | Histamine N-methyltransferase | 2.1.1.8 | 0.682 | |
3gry | SAM | Probable ribosomal RNA small subunit methyltransferase A | / | 0.682 | |
3gu3 | SAH | Methyltransferase | / | 0.682 | |
3hvk | 719 | Catechol O-methyltransferase | 2.1.1.6 | 0.682 | |
1r00 | SAH | Aclacinomycin 10-hydroxylase RdmB | 4.1.1 | 0.681 | |
4ckb | SAH | mRNA-capping enzyme catalytic subunit | 2.1.1.56 | 0.681 | |
4pyo | SAH | Catechol O-methyltransferase | 2.1.1.6 | 0.681 | |
1af7 | SAH | Chemotaxis protein methyltransferase | 2.1.1.80 | 0.680 | |
1orr | NAD | CDP-paratose 2-epimerase | / | 0.680 | |
2hms | NAI | Ktr system potassium uptake protein A | / | 0.680 | |
2pzj | NAD | Putative nucleotide sugar epimerase/ dehydratase | / | 0.680 | |
3dmg | SAH | Probable ribosomal RNA small subunit methyltransferase | / | 0.680 | |
3g8a | SAH | Ribosomal RNA small subunit methyltransferase G | / | 0.680 | |
3lst | SAH | CalO1 | / | 0.680 | |
4c03 | SFG | Protein arginine N-methyltransferase 6 | / | 0.680 | |
3reo | SAH | (Iso)eugenol O-methyltransferase | 2.1.1.146 | 0.679 | |
4rvd | SAM | D-mycarose 3-C-methyltransferase | / | 0.679 | |
4wec | NAD | Short chain dehydrogenase | / | 0.679 | |
4e2x | SAH | Methyltransferase | / | 0.678 | |
5ccb | SAH | tRNA (adenine(58)-N(1))-methyltransferase catalytic subunit TRMT61A | 2.1.1.220 | 0.678 | |
2uyh | SAH | Modification methylase HhaI | 2.1.1.37 | 0.677 | |
4htf | SAM | tRNA 5-carboxymethoxyuridine methyltransferase | / | 0.677 | |
4pgh | SAM | Caffeic acid O-methyltransferase | / | 0.677 | |
5f8f | SFG | Possible transcriptional regulatory protein | / | 0.677 | |
1rje | SAH | Leucine carboxyl methyltransferase 1 | 2.1.1.233 | 0.676 | |
2ewm | NAD | (S)-1-Phenylethanol dehydrogenase | 1.1.1.311 | 0.676 | |
2nyu | SAM | rRNA methyltransferase 2, mitochondrial | / | 0.676 | |
3u81 | SAH | Catechol O-methyltransferase | 2.1.1.6 | 0.676 | |
9mht | SAH | Modification methylase HhaI | 2.1.1.37 | 0.676 | |
3duw | SAH | O-methyltransferase, putative | / | 0.675 | |
4pyn | SAH | Catechol O-methyltransferase | 2.1.1.6 | 0.675 | |
2zzm | SAM | tRNA (guanine(37)-N1)-methyltransferase Trm5b | 2.1.1.228 | 0.674 | |
1nah | NAD | UDP-glucose 4-epimerase | 5.1.3.2 | 0.673 | |
3jyp | NAD | Quinate/shikimate dehydrogenase (NAD(+)) | / | 0.673 | |
3ou6 | SAM | SAM-dependent methyltransferase | / | 0.673 | |
3t7t | SAH | Uncharacterized protein | / | 0.673 | |
3tm4 | SAM | Uncharacterized protein | / | 0.673 | |
1i9g | SAM | tRNA (adenine(58)-N(1))-methyltransferase TrmI | / | 0.672 | |
3dh0 | SAM | Uncharacterized protein | / | 0.672 | |
3jyq | NAD | Quinate/shikimate dehydrogenase (NAD(+)) | / | 0.672 | |
1qzz | SAM | Aclacinomycin 10-hydroxylase RdmB | 4.1.1 | 0.671 | |
2q1w | NAD | Putative nucleotide sugar epimerase/ dehydratase | / | 0.671 | |
3lcu | SAH | 16S rRNA (guanine(1405)-N(7))-methyltransferase | 2.1.1.179 | 0.671 | |
3mht | SAH | Modification methylase HhaI | 2.1.1.37 | 0.671 | |
4yai | NAI | C alpha-dehydrogenase | / | 0.671 | |
1p1h | NAD | Inositol-3-phosphate synthase | 5.5.1.4 | 0.670 | |
1jr4 | CL4 | Catechol O-methyltransferase | 2.1.1.6 | 0.669 | |
2fkn | NAD | Urocanate hydratase | 4.2.1.49 | 0.669 | |
2yx1 | SFG | tRNA (guanine(37)-N1)-methyltransferase Trm5b | 2.1.1.228 | 0.669 | |
2yxl | SFG | 450aa long hypothetical fmu protein | / | 0.669 | |
3e8s | SAH | Uncharacterized protein | / | 0.669 | |
3e23 | SAM | Uncharacterized protein | / | 0.668 | |
4x7y | SAH | Mycinamicin III 3''-O-methyltransferase | 2.1.1.237 | 0.668 | |
1skm | SAH | Modification methylase HhaI | 2.1.1.37 | 0.667 | |
3ruf | NAD | UDP-N-acetylglucosamine 4-epimerase | / | 0.667 | |
4kvz | SAH | PtnL protein | / | 0.667 | |
4qnv | GEK | tRNA U34 carboxymethyltransferase | / | 0.667 | |
4xvy | SAH | Mycinamicin III 3''-O-methyltransferase | 2.1.1.237 | 0.667 | |
1pow | FAD | Pyruvate oxidase | 1.2.3.3 | 0.666 | |
1rjg | SAH | Leucine carboxyl methyltransferase 1 | 2.1.1.233 | 0.666 | |
5dxa | SFG | Histone-arginine methyltransferase CARM1 | / | 0.666 | |
5e72 | SAM | N2, N2-dimethylguanosine tRNA methyltransferase | / | 0.666 | |
5jla | NAD | Putative short-chain dehydrogenase/reductase | / | 0.666 | |
3cjt | SAH | Ribosomal protein L11 methyltransferase | 2.1.1 | 0.665 | |
3p2k | SAM | 16S rRNA (adenine(1408)-N(1))-methyltransferase | 2.1.1.180 | 0.665 | |
4fn4 | NAD | Short chain dehydrogenase | / | 0.665 | |
4rtk | SAH | DNA adenine methylase | 2.1.1.72 | 0.665 | |
4yag | NAI | C alpha-dehydrogenase | / | 0.665 | |
3rua | NAD | UDP-N-acetylglucosamine 4-epimerase | / | 0.664 | |
4ek9 | EP4 | Histone-lysine N-methyltransferase, H3 lysine-79 specific | 2.1.1.43 | 0.664 | |
5dxj | SFG | Histone-arginine methyltransferase CARM1 | / | 0.664 | |
2np7 | NEA | Modification methylase TaqI | 2.1.1.72 | 0.663 | |
2q1t | NAD | Putative nucleotide sugar epimerase/ dehydratase | / | 0.663 | |
3ou7 | SAM | SAM-dependent methyltransferase | / | 0.663 | |
4gbe | SAH | DNA adenine methylase | 2.1.1.72 | 0.663 | |
1g1a | NAD | dTDP-glucose 4,6-dehydratase | / | 0.662 | |
2cdu | ADP | NADH oxidase | / | 0.662 | |
3ea4 | FAB | Acetolactate synthase, chloroplastic | 2.2.1.6 | 0.662 | |
3sxp | NAD | ADP-L-glycero-D-mannoheptose-6-epimerase | / | 0.662 | |
4nzh | FAD | L-ornithine N(5)-monooxygenase | / | 0.662 | |
4yv2 | S4M | Spermidine synthase, putative | / | 0.662 | |
2bh2 | SAH | 23S rRNA (uracil(1939)-C(5))-methyltransferase RlmD | / | 0.661 | |
2c20 | NAD | UDP-glucose 4-epimerase | / | 0.661 | |
2hmv | ADP | Ktr system potassium uptake protein A | / | 0.661 | |
3wst | SAH | Protein arginine N-methyltransferase 7 | 2.1.1 | 0.661 | |
4id9 | NAD | Putative UDP-glucose 4-epimerase | / | 0.661 | |
2e1m | FAD | L-glutamate oxidase | / | 0.660 | |
2np6 | NEA | Modification methylase TaqI | 2.1.1.72 | 0.660 | |
2xvm | SAH | Tellurite methyltransferase | 2.1.1.265 | 0.660 | |
2xyr | SFG | Replicase polyprotein 1ab | 2.1.1 | 0.660 | |
3ldf | SAH | Uncharacterized protein | / | 0.660 | |
4tlz | FAD | KtzI | / | 0.660 | |
1ahh | NAD | 7-alpha-hydroxysteroid dehydrogenase | 1.1.1.159 | 0.659 | |
1hzz | NAD | NAD(P) transhydrogenase subunit alpha part 1 | 1.6.1.2 | 0.659 | |
1n4v | FAD | Cholesterol oxidase | 1.1.3.6 | 0.659 | |
4xxg | FAD | Cholesterol oxidase | 1.1.3.6 | 0.659 | |
2c59 | NAD | GDP-mannose 3,5-epimerase | 5.1.3.18 | 0.658 | |
2gew | FAD | Cholesterol oxidase | 1.1.3.6 | 0.658 | |
2oy0 | SAH | Genome polyprotein | / | 0.658 | |
3fpf | MTA | Uncharacterized protein | / | 0.658 | |
3tm5 | SFG | Uncharacterized protein | / | 0.658 | |
3tos | SAH | CalS11 | / | 0.658 | |
1p1c | SAH | Guanidinoacetate N-methyltransferase | 2.1.1.2 | 0.657 | |
3lu1 | NAD | UDP-N-acetylglucosamine 4-epimerase | / | 0.657 | |
3pt6 | SAH | DNA (cytosine-5)-methyltransferase 1 | 2.1.1.37 | 0.657 | |
2h00 | SAH | U6 small nuclear RNA (adenine-(43)-N(6))-methyltransferase | / | 0.655 | |
2ji6 | ADP | Oxalyl-CoA decarboxylase | 4.1.1.8 | 0.655 | |
3a26 | MTA | tRNA(Phe) (4-demethylwyosine(37)-C(7)) aminocarboxypropyltransferase | / | 0.655 | |
3cjq | SAH | Ribosomal protein L11 methyltransferase | 2.1.1 | 0.655 | |
3n1s | 5GP | Purine nucleoside phosphoramidase | / | 0.655 | |
4egu | 5GP | Putative histidine triad (HIT) protein | / | 0.655 | |
5mht | SAH | Modification methylase HhaI | 2.1.1.37 | 0.655 | |
1uay | ADN | Oxidoreductase | / | 0.654 | |
2a14 | SAH | Indolethylamine N-methyltransferase | 2.1.1.49 | 0.654 | |
2p5y | NAD | UDP-glucose 4-epimerase | / | 0.654 | |
2zth | SAM | Catechol O-methyltransferase | 2.1.1.6 | 0.654 | |
3a27 | SAM | tRNA(Phe) (4-demethylwyosine(37)-C(7)) aminocarboxypropyltransferase | / | 0.654 | |
3b6d | FAE | Cholesterol oxidase | 1.1.3.6 | 0.654 | |
3cox | FAD | Cholesterol oxidase | 1.1.3.6 | 0.653 | |
4eqg | A5A | Histidine triad nucleotide-binding protein 1 | 3 | 0.653 | |
4qi4 | FAD | Cellobiose dehydrogenase | / | 0.653 | |
4tm4 | FDA | KtzI | / | 0.653 | |
5eow | FAD | 6-hydroxynicotinate 3-monooxygenase | 1.14.13.114 | 0.653 | |
1wy7 | SAH | Uncharacterized protein | / | 0.652 | |
2i9k | SAH | Modification methylase HhaI | 2.1.1.37 | 0.652 | |
4c05 | SAH | Protein arginine N-methyltransferase 6 | / | 0.652 | |
4eqe | KAA | Histidine triad nucleotide-binding protein 1 | 3 | 0.652 | |
1f3l | SAH | Protein arginine N-methyltransferase 3 | / | 0.651 | |
1nw3 | SAM | Histone-lysine N-methyltransferase, H3 lysine-79 specific | 2.1.1.43 | 0.651 | |
2pxa | SAH | Genome polyprotein | 2.7.7.48 | 0.651 | |
1e6e | FAD | NADPH:adrenodoxin oxidoreductase, mitochondrial | 1.18.1.6 | 0.650 | |
1jki | NAI | Inositol-3-phosphate synthase | 5.5.1.4 | 0.650 | |
2fk8 | SAM | Hydroxymycolate synthase MmaA4 | 2.1.1 | 0.650 | |
2p5u | NAD | UDP-glucose 4-epimerase | / | 0.650 | |
2z6u | SAH | Modification methylase HhaI | 2.1.1.37 | 0.650 | |
3ha5 | SFG | Hydroxymycolate synthase MmaA4 | 2.1.1 | 0.650 |