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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
1khh SAH Guanidinoacetate N-methyltransferase 2.1.1.2

Complex with similar interaction patterns:

PDB ID HET Uniprot Name EC Number Binding Mode
Similarity		 Align
1khh SAHGuanidinoacetate N-methyltransferase 2.1.1.2 0.943
1p1c SAHGuanidinoacetate N-methyltransferase 2.1.1.2 0.841
3orh SAHGuanidinoacetate N-methyltransferase 2.1.1.2 0.840
1p1b SAHGuanidinoacetate N-methyltransferase 2.1.1.2 0.838
5ccb SAHtRNA (adenine(58)-N(1))-methyltransferase catalytic subunit TRMT61A 2.1.1.220 0.742
2v74 SAHHistone-arginine methyltransferase CARM1 / 0.716
5ccx SAHtRNA (adenine(58)-N(1))-methyltransferase catalytic subunit TRMT61A 2.1.1.220 0.715
3vyw SAMUncharacterized protein / 0.709
3b3f SAHHistone-arginine methyltransferase CARM1 / 0.704
3u81 SAHCatechol O-methyltransferase 2.1.1.6 0.704
3fri SAH16S rRNA methylase / 0.703
1f3l SAHProtein arginine N-methyltransferase 3 / 0.702
3sso SAHMycinamicin VI 2''-O-methyltransferase / 0.700
5jr3 SAHCarminomycin 4-O-methyltransferase DnrK 2.1.1.292 0.700
2y1x SAHHistone-arginine methyltransferase CARM1 / 0.699
4gek GEKCarboxy-S-adenosyl-L-methionine synthase / 0.698
5fa5 MTAProtein arginine N-methyltransferase 5 / 0.698
3ssm SAHMycinamicin VI 2''-O-methyltransferase / 0.695
4kwc SAHMethyltransferase domain family / 0.692
4pyn SAHCatechol O-methyltransferase 2.1.1.6 0.686
1d2h SAHGlycine N-methyltransferase 2.1.1.20 0.684
3lcc SAHThiocyanate methyltransferase 1 / 0.684
5bp9 SAHPutative methyltransferase protein / 0.684
5dx1 SFGHistone-arginine methyltransferase CARM1 / 0.684
4xvy SAHMycinamicin III 3''-O-methyltransferase 2.1.1.237 0.683
4pyo SAHCatechol O-methyltransferase 2.1.1.6 0.682
4x7y SAHMycinamicin III 3''-O-methyltransferase 2.1.1.237 0.682
2pwy SAHtRNA (adenine(58)-N(1))-methyltransferase TrmI 2.1.1.220 0.681
1l3i SAHProbable cobalt-precorrin-6B C(15)-methyltransferase (decarboxylating) / 0.680
4gqb 0XUProtein arginine N-methyltransferase 5 / 0.680
1i9g SAMtRNA (adenine(58)-N(1))-methyltransferase TrmI / 0.679
4kvz SAHPtnL protein / 0.677
4ymg SAMPutative SAM-dependent O-methyltranferase / 0.677
2yvl SAMtRNA (adenine(58)-N(1))-methyltransferase TrmI / 0.676
3duw SAHO-methyltransferase, putative / 0.676
3lga SAHtRNA (adenine(57)-N(1)/adenine(58)-N(1))-methyltransferase TrmI 2.1.1.219 0.675
4hc4 SAHProtein arginine N-methyltransferase 6 / 0.673
3grr SAHProbable ribosomal RNA small subunit methyltransferase A / 0.672
3ou2 SAHSAM-dependent methyltransferase / 0.672
3reo SAH(Iso)eugenol O-methyltransferase 2.1.1.146 0.672
4lwp SAHArginine N-methyltransferase, putative / 0.671
4oa5 SAHO-methyltransferase family protein / 0.671
1nai NADUDP-glucose 4-epimerase 5.1.3.2 0.670
4uy6 SAHHistidine N-alpha-methyltransferase / 0.670
2br5 SAHCephalosporin hydroxylase CmcI / 0.668
5dwq SFGHistone-arginine methyltransferase CARM1 / 0.668
5f2k SAHUncharacterized protein / 0.668
1bc5 SAHChemotaxis protein methyltransferase 2.1.1.80 0.666
3grv ADNProbable ribosomal RNA small subunit methyltransferase A / 0.664
5icf SAH(S)-norcoclaurine 6-O-methyltransferase / 0.663
4hh4 SAHCcbJ / 0.662
2hnk SAHSAM-dependent O-methyltransferase / 0.661
3go4 SAHUncharacterized protein / 0.661
4qpp SAHProtein arginine N-methyltransferase 6 / 0.660
5dxa SFGHistone-arginine methyltransferase CARM1 / 0.660
2zth SAMCatechol O-methyltransferase 2.1.1.6 0.656
3e23 SAMUncharacterized protein / 0.656
3uj7 SAMPhosphoethanolamine N-methyltransferase / 0.656
4rvd SAMD-mycarose 3-C-methyltransferase / 0.656
1wg8 SAMRibosomal RNA small subunit methyltransferase H / 0.654
1y9d FADPyruvate oxidase 1.2.3.3 0.653
1txz APRProbable ADP-ribose 1''-phosphate phosphatase YML087W 3.1.3.84 0.652
2gs9 SAHUncharacterized protein / 0.652
3p2e SAH16S rRNA (adenine(1408)-N(1))-methyltransferase 2.1.1.180 0.652
3pb3 SAH16S rRNA (adenine(1408)-N(1))-methyltransferase 2.1.1.180 0.652
4m37 SAHProtein arginine N-methyltransferase 7 2.1.1 0.652
4fr0 SAMArsenic methyltransferase / 0.651
4o29 SAHProtein-L-isoaspartate O-methyltransferase / 0.651
4wec NADShort chain dehydrogenase / 0.651
5bxy SAHPutative RNA methylase family UPF0020 / 0.650
5je2 SAHMethyl transferase / 0.650