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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
4uy6 SAH Histidine N-alpha-methyltransferase

Complex with similar interaction patterns:

PDB ID HET Uniprot Name EC Number Binding Mode
Similarity		 Align
4uy6 SAHHistidine N-alpha-methyltransferase / 1.134
3ou2 SAHSAM-dependent methyltransferase / 0.783
3t7s SAMUncharacterized protein / 0.778
5dwq SFGHistone-arginine methyltransferase CARM1 / 0.775
3e23 SAMUncharacterized protein / 0.771
5je2 SAHMethyl transferase / 0.760
4gqb 0XUProtein arginine N-methyltransferase 5 / 0.759
5dxj SFGHistone-arginine methyltransferase CARM1 / 0.757
4hh4 SAHCcbJ / 0.756
3kkz SAMUncharacterized protein / 0.754
3b3f SAHHistone-arginine methyltransferase CARM1 / 0.749
5fa5 MTAProtein arginine N-methyltransferase 5 / 0.745
3t0i SAHPutative methyltransferase / 0.742
5icf SAH(S)-norcoclaurine 6-O-methyltransferase / 0.737
3gry SAMProbable ribosomal RNA small subunit methyltransferase A / 0.733
5bp9 SAHPutative methyltransferase protein / 0.731
2bzg SAHThiopurine S-methyltransferase 2.1.1.67 0.729
5dx8 SFGHistone-arginine methyltransferase CARM1 / 0.729
5ccb SAHtRNA (adenine(58)-N(1))-methyltransferase catalytic subunit TRMT61A 2.1.1.220 0.725
3q87 SAMN6 ADENINE SPECIFIC DNA METHYLASE (METHYLTRANSFERASE SUPERFAMILY) / 0.724
4c04 SFGProtein arginine N-methyltransferase 6 / 0.724
4nec SAHPutative SAM-dependent methyltransferase / 0.724
3lcu SAH16S rRNA (guanine(1405)-N(7))-methyltransferase 2.1.1.179 0.723
2qe6 SAMUncharacterized protein / 0.722
3bgi SAHThiopurine S-methyltransferase 2.1.1.67 0.722
3fri SAH16S rRNA methylase / 0.722
5dxa SFGHistone-arginine methyltransferase CARM1 / 0.720
2nxe SAMRibosomal protein L11 methyltransferase 2.1.1 0.717
5fa8 SAMRibosomal protein L11 methyltransferase, putative / 0.713
5dx1 SFGHistone-arginine methyltransferase CARM1 / 0.711
1nai NADUDP-glucose 4-epimerase 5.1.3.2 0.710
2vdv SAMtRNA (guanine-N(7)-)-methyltransferase / 0.707
3dmh SAMProbable ribosomal RNA small subunit methyltransferase / 0.706
3grr SAHProbable ribosomal RNA small subunit methyltransferase A / 0.706
4qdk SAHMagnesium-protoporphyrin O-methyltransferase 2.1.1.11 0.705
5ccx SAHtRNA (adenine(58)-N(1))-methyltransferase catalytic subunit TRMT61A 2.1.1.220 0.702
3ssm SAHMycinamicin VI 2''-O-methyltransferase / 0.701
4a6d SAMAcetylserotonin O-methyltransferase 2.1.1.4 0.701
4kvz SAHPtnL protein / 0.701
1kvr NADUDP-glucose 4-epimerase 5.1.3.2 0.697
3e8s SAHUncharacterized protein / 0.697
4ax8 SAMO-antigen chain terminator bifunctional methyltransferase/kinase WbdD / 0.696
3ou6 SAMSAM-dependent methyltransferase / 0.695
3t7t SAHUncharacterized protein / 0.695
3iei SAHLeucine carboxyl methyltransferase 1 2.1.1.233 0.694
5je3 SAHMethyl transferase / 0.694
5jr3 SAHCarminomycin 4-O-methyltransferase DnrK 2.1.1.292 0.694
1p1c SAHGuanidinoacetate N-methyltransferase 2.1.1.2 0.693
5jdz SAHMethyl transferase / 0.693
1qan SAHrRNA adenine N-6-methyltransferase 2.1.1.184 0.692
1sqf SAMRibosomal RNA small subunit methyltransferase B 2.1.1.176 0.692
2p35 SAHTrans-aconitate 2-methyltransferase / 0.692
3dlc SAMSAM (And some other nucleotide) binding motif:Generic methyltransferase / 0.692
4iwn GEKCarboxy-S-adenosyl-L-methionine synthase / 0.692
2y1x SAHHistone-arginine methyltransferase CARM1 / 0.691
1g1a NADdTDP-glucose 4,6-dehydratase / 0.690
3sxj SAMPutative methyltransferase / 0.689
5f8f SFGPossible transcriptional regulatory protein / 0.689
1nw3 SAMHistone-lysine N-methyltransferase, H3 lysine-79 specific 2.1.1.43 0.688
1wy7 SAHUncharacterized protein / 0.688
3go4 SAHUncharacterized protein / 0.688
4lwp SAHArginine N-methyltransferase, putative / 0.686
5dst SAHProtein arginine N-methyltransferase 8 2.1.1 0.686
2zwv SAHProbable ribosomal RNA small subunit methyltransferase / 0.685
1rje SAHLeucine carboxyl methyltransferase 1 2.1.1.233 0.683
4c03 SFGProtein arginine N-methyltransferase 6 / 0.683
4dcm SAMRibosomal RNA large subunit methyltransferase G 2.1.1.174 0.683
1kr5 SAHProtein-L-isoaspartate(D-aspartate) O-methyltransferase 2.1.1.77 0.682
2jib ADPOxalyl-CoA decarboxylase 4.1.1.8 0.682
3p9k SAHCaffeic acid O-methyltransferase / 0.680
3sx2 NADUncharacterized protein / 0.680
4hc4 SAHProtein arginine N-methyltransferase 6 / 0.680
3sgl SAMtRNA 5-methylaminomethyl-2-thiouridine biosynthesis bifunctional protein MnmC / 0.678
4ek9 EP4Histone-lysine N-methyltransferase, H3 lysine-79 specific 2.1.1.43 0.676
2pwy SAHtRNA (adenine(58)-N(1))-methyltransferase TrmI 2.1.1.220 0.675
4yac NAIC alpha-dehydrogenase / 0.674
2yqz SAMUncharacterized protein / 0.673
4gek GEKCarboxy-S-adenosyl-L-methionine synthase / 0.673
1rjd SAMLeucine carboxyl methyltransferase 1 2.1.1.233 0.672
1zmc NADDihydrolipoyl dehydrogenase, mitochondrial 1.8.1.4 0.672
2h00 SAHU6 small nuclear RNA (adenine-(43)-N(6))-methyltransferase / 0.672
3mht SAHModification methylase HhaI 2.1.1.37 0.672
3ua3 SAHProtein arginine N-methyltransferase 5 / 0.672
2o06 MTASpermidine synthase 2.5.1.16 0.671
1khh SAHGuanidinoacetate N-methyltransferase 2.1.1.2 0.670
1jr4 CL4Catechol O-methyltransferase 2.1.1.6 0.669
2i9k SAHModification methylase HhaI 2.1.1.37 0.669
3gwz SAHMitomycin biosynthesis 6-O-methyltransferase / 0.669
1qaq SFGrRNA adenine N-6-methyltransferase 2.1.1.184 0.668
4fr0 SAMArsenic methyltransferase / 0.668
3o7w SAMLeucine carboxyl methyltransferase 1 2.1.1.233 0.666
4kdr SAHUbiquinone biosynthesis O-methyltransferase / 0.666
4kwc SAHMethyltransferase domain family / 0.666
4pyo SAHCatechol O-methyltransferase 2.1.1.6 0.666
2gs9 SAHUncharacterized protein / 0.665
5bxy SAHPutative RNA methylase family UPF0020 / 0.665
2a14 SAHIndolethylamine N-methyltransferase 2.1.1.49 0.664
4nbu NAI3-oxoacyl-(Acyl-carrier-protein) reductase / 0.664
5epe SAHUncharacterized protein / 0.664
2xvm SAHTellurite methyltransferase 2.1.1.265 0.662
2zw9 SAMtRNA wybutosine-synthesizing protein 4 2.1.1.290 0.662
3reo SAH(Iso)eugenol O-methyltransferase 2.1.1.146 0.661
2eju SAHtRNA (guanine(26)-N(2))-dimethyltransferase / 0.660
2p5u NADUDP-glucose 4-epimerase / 0.660
3g8a SAHRibosomal RNA small subunit methyltransferase G / 0.659
3lst SAHCalO1 / 0.659
1ahh NAD7-alpha-hydroxysteroid dehydrogenase 1.1.1.159 0.658
2ji7 ADPOxalyl-CoA decarboxylase 4.1.1.8 0.658
2ji6 ADPOxalyl-CoA decarboxylase 4.1.1.8 0.657
4dmg SAMUncharacterized protein / 0.657
4qnu GEKtRNA U34 carboxymethyltransferase / 0.657
2ewm NAD(S)-1-Phenylethanol dehydrogenase 1.1.1.311 0.656
2o07 MTASpermidine synthase 2.5.1.16 0.656
1xdu SFGAclacinomycin 10-hydroxylase RdmB 4.1.1 0.655
2v7g NADUrocanate hydratase 4.2.1.49 0.655
3i53 SAH2,7-dihydroxy-5-methyl-1-naphthoate 7-O-methyltransferase / 0.655
4fzv SAM5-methylcytosine rRNA methyltransferase NSUN4 2.1.1 0.655
3kpj SAHPhenylethanolamine N-methyltransferase 2.1.1.28 0.654
3tm4 SAMUncharacterized protein / 0.654
1bxk NADdTDP-glucose 4,6-dehydratase 2 / 0.653
2eg5 SAH7-methylxanthosine synthase 1 / 0.652
1nv9 SAHRelease factor glutamine methyltransferase 2.1.1.297 0.651
4q7f 3D1Uncharacterized protein / 0.651
1n4u FAECholesterol oxidase 1.1.3.6 0.650
4u2s FDACholesterol oxidase 1.1.3.6 0.650
4xwr FADCholesterol oxidase 1.1.3.6 0.650
5e8j SAHmRNA cap guanine-N7 methyltransferase 2.1.1.56 0.650
5je4 SAHMethyl transferase / 0.650