Logo scPDB

sc-PDB

An Annotated Database of Druggable Binding Sites from the Protein DataBank

Logo CNRS Logo Unistra
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
4krh SAM Phosphoethanolamine N-methyltransferase 2

Complex with similar interaction patterns:

PDB ID HET Uniprot Name EC Number Binding Mode
Similarity		 Align
4krh SAMPhosphoethanolamine N-methyltransferase 2 / 1.072
3uj7 SAMPhosphoethanolamine N-methyltransferase / 0.801
3uj8 SFGPhosphoethanolamine N-methyltransferase / 0.800
4r6x SAHPhosphoethanolamine N-methyltransferase / 0.770
1nbi SAMGlycine N-methyltransferase 2.1.1.20 0.750
4mwz SAMPhosphoethanolamine N-methyltransferase, putative / 0.747
5je2 SAHMethyl transferase / 0.741
4iv0 SAMPhosphoethanolamine N-methyltransferase, putative / 0.736
4kvz SAHPtnL protein / 0.728
4qtu SAM18S rRNA (guanine(1575)-N(7))-methyltransferase / 0.727
3mht SAHModification methylase HhaI 2.1.1.37 0.723
4iv8 SAMPhosphoethanolamine N-methyltransferase,putative / 0.722
1skm SAHModification methylase HhaI 2.1.1.37 0.720
2c7q SAHModification methylase HhaI 2.1.1.37 0.719
3b3f SAHHistone-arginine methyltransferase CARM1 / 0.719
3lcc SAHThiocyanate methyltransferase 1 / 0.719
7mht SAHModification methylase HhaI 2.1.1.37 0.718
4gek GEKCarboxy-S-adenosyl-L-methionine synthase / 0.717
4qdk SAHMagnesium-protoporphyrin O-methyltransferase 2.1.1.11 0.716
2i9k SAHModification methylase HhaI 2.1.1.37 0.715
3emd SFGMethyltransferase / 0.714
1nbh SAMGlycine N-methyltransferase 2.1.1.20 0.713
2yxl SFG450aa long hypothetical fmu protein / 0.711
3tos SAHCalS11 / 0.710
1kia SAMGlycine N-methyltransferase 2.1.1.20 0.709
2p35 SAHTrans-aconitate 2-methyltransferase / 0.709
4o29 SAHProtein-L-isoaspartate O-methyltransferase / 0.709
5dxj SFGHistone-arginine methyltransferase CARM1 / 0.708
1wg8 SAMRibosomal RNA small subunit methyltransferase H / 0.705
5ccx SAHtRNA (adenine(58)-N(1))-methyltransferase catalytic subunit TRMT61A 2.1.1.220 0.705
2hv9 SFGmRNA cap guanine-N7 methyltransferase 2.1.1.56 0.703
4kwc SAHMethyltransferase domain family / 0.702
3c3y SAHO-methyltransferase / 0.701
5dst SAHProtein arginine N-methyltransferase 8 2.1.1 0.701
4fgz SAHPhosphoethanolamine N-methyltransferase / 0.700
5ccb SAHtRNA (adenine(58)-N(1))-methyltransferase catalytic subunit TRMT61A 2.1.1.220 0.700
1rjg SAHLeucine carboxyl methyltransferase 1 2.1.1.233 0.698
2pxa SAHGenome polyprotein 2.7.7.48 0.698
1ri3 SAHmRNA cap guanine-N7 methyltransferase 2.1.1.56 0.696
9mht SAHModification methylase HhaI 2.1.1.37 0.696
3pt9 SAHDNA (cytosine-5)-methyltransferase 1 2.1.1.37 0.695
2z6u SAHModification methylase HhaI 2.1.1.37 0.694
1z3c SA8mRNA cap guanine-N7 methyltransferase 2.1.1.56 0.693
3dlc SAMSAM (And some other nucleotide) binding motif:Generic methyltransferase / 0.692
4oa5 SAHO-methyltransferase family protein / 0.690
4yuz S4MSpermidine synthase, putative / 0.690
1nw3 SAMHistone-lysine N-methyltransferase, H3 lysine-79 specific 2.1.1.43 0.689
1y8q ATPSUMO-activating enzyme subunit 2 6.3.2 0.689
3u81 SAHCatechol O-methyltransferase 2.1.1.6 0.689
1kph SAHCyclopropane mycolic acid synthase 1 2.1.1.79 0.688
3cbg SAHO-methyltransferase / 0.687
3kkz SAMUncharacterized protein / 0.687
1bc5 SAHChemotaxis protein methyltransferase 2.1.1.80 0.686
4pyo SAHCatechol O-methyltransferase 2.1.1.6 0.686
4yac NAIC alpha-dehydrogenase / 0.685
2uyh SAHModification methylase HhaI 2.1.1.37 0.684
2v7g NADUrocanate hydratase 4.2.1.49 0.684
3g07 SAM7SK snRNA methylphosphate capping enzyme 2.1.1 0.684
4yv1 S4MSpermidine synthase, putative / 0.683
2zth SAMCatechol O-methyltransferase 2.1.1.6 0.682
4lwp SAHArginine N-methyltransferase, putative / 0.681
4c04 SFGProtein arginine N-methyltransferase 6 / 0.680
4x7y SAHMycinamicin III 3''-O-methyltransferase 2.1.1.237 0.680
3a25 SAMtRNA(Phe) (4-demethylwyosine(37)-C(7)) aminocarboxypropyltransferase / 0.679
3sso SAHMycinamicin VI 2''-O-methyltransferase / 0.679
5g3t FDAFlavin-dependent L-tryptophan oxidase VioA / 0.679
1g1a NADdTDP-glucose 4,6-dehydratase / 0.678
2zw9 SAMtRNA wybutosine-synthesizing protein 4 2.1.1.290 0.678
3pb3 SAH16S rRNA (adenine(1408)-N(1))-methyltransferase 2.1.1.180 0.678
4pyn SAHCatechol O-methyltransferase 2.1.1.6 0.678
4wec NADShort chain dehydrogenase / 0.678
5f2k SAHUncharacterized protein / 0.678
4c03 SFGProtein arginine N-methyltransferase 6 / 0.675
4hc4 SAHProtein arginine N-methyltransferase 6 / 0.674
1jki NAIInositol-3-phosphate synthase 5.5.1.4 0.673
1rje SAHLeucine carboxyl methyltransferase 1 2.1.1.233 0.673
2gs9 SAHUncharacterized protein / 0.673
2o07 MTASpermidine synthase 2.5.1.16 0.673
1af7 SAHChemotaxis protein methyltransferase 2.1.1.80 0.672
4pne SAHMethyltransferase-like protein / 0.672
1jr4 CL4Catechol O-methyltransferase 2.1.1.6 0.671
2i62 SAHNicotinamide N-methyltransferase 2.1.1.1 0.671
3bgi SAHThiopurine S-methyltransferase 2.1.1.67 0.671
4ymg SAMPutative SAM-dependent O-methyltranferase / 0.671
2yqz SAMUncharacterized protein / 0.670
1ve3 SAMUncharacterized protein / 0.669
3t7s SAMUncharacterized protein / 0.669
1orr NADCDP-paratose 2-epimerase / 0.668
2zfu SAHRibosomal RNA-processing protein 8 / 0.668
2br5 SAHCephalosporin hydroxylase CmcI / 0.666
4fn4 NADShort chain dehydrogenase / 0.666
5epe SAHUncharacterized protein / 0.666
1f3l SAHProtein arginine N-methyltransferase 3 / 0.665
2zcj SAHModification methylase HhaI 2.1.1.37 0.665
3a26 MTAtRNA(Phe) (4-demethylwyosine(37)-C(7)) aminocarboxypropyltransferase / 0.665
3duw SAHO-methyltransferase, putative / 0.665
3reo SAH(Iso)eugenol O-methyltransferase 2.1.1.146 0.665
5fa5 MTAProtein arginine N-methyltransferase 5 / 0.664
1wy7 SAHUncharacterized protein / 0.663
4xxg FADCholesterol oxidase 1.1.3.6 0.662
1ek5 NADUDP-glucose 4-epimerase / 0.661
1y56 FAD382aa long hypothetical sarcosine oxidase / 0.661
2xyr SFGReplicase polyprotein 1ab 2.1.1 0.661
5bp7 SAHSAM-dependent methyltransferase / 0.661
5dwq SFGHistone-arginine methyltransferase CARM1 / 0.661
1p1c SAHGuanidinoacetate N-methyltransferase 2.1.1.2 0.660
2pan FADGlyoxylate carboligase 4.1.1.47 0.660
3a27 SAMtRNA(Phe) (4-demethylwyosine(37)-C(7)) aminocarboxypropyltransferase / 0.659
2a14 SAHIndolethylamine N-methyltransferase 2.1.1.49 0.658
2q1w NADPutative nucleotide sugar epimerase/ dehydratase / 0.657
3aeb FADSuccinate dehydrogenase [ubiquinone] flavoprotein subunit, mitochondrial / 0.657
3qow SAMHistone-lysine N-methyltransferase, H3 lysine-79 specific 2.1.1.43 0.657
5eku SAHArginine N-methyltransferase, putative / 0.657
2qe6 SAMUncharacterized protein / 0.656
1ori SAHProtein arginine N-methyltransferase 1 / 0.655
3dh0 SAMUncharacterized protein / 0.655
3epp SFGmRNA cap guanine-N7 methyltransferase 2.1.1.56 0.655
2bh2 SAH23S rRNA (uracil(1939)-C(5))-methyltransferase RlmD / 0.654
2np6 NEAModification methylase TaqI 2.1.1.72 0.654
2zzn SAMtRNA (guanine(37)-N1)-methyltransferase Trm5b 2.1.1.228 0.654
3fpf MTAUncharacterized protein / 0.654
3go4 SAHUncharacterized protein / 0.654
3iv6 SAMUncharacterized protein / 0.654
3p2e SAH16S rRNA (adenine(1408)-N(1))-methyltransferase 2.1.1.180 0.654
3t0i SAHPutative methyltransferase / 0.654
4c05 SAHProtein arginine N-methyltransferase 6 / 0.654
2ji9 ADPOxalyl-CoA decarboxylase 4.1.1.8 0.652
3cjt SAHRibosomal protein L11 methyltransferase 2.1.1 0.652
2px5 SAHGenome polyprotein 2.7.7.48 0.651
3cgc FADCoenzyme A disulfide reductase / 0.651
3nn6 FB06-hydroxy-L-nicotine oxidase / 0.651
4gbe SAHDNA adenine methylase 2.1.1.72 0.651
2c31 ADPOxalyl-CoA decarboxylase 4.1.1.8 0.650
3geg NADShort-chain dehydrogenase/reductase SDR / 0.650