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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
3cjq SAH Ribosomal protein L11 methyltransferase 2.1.1

Complex with similar interaction patterns:

PDB ID HET Uniprot Name EC Number Binding Mode
Similarity		 Align
3cjq SAHRibosomal protein L11 methyltransferase 2.1.1 0.933
3egv SAHRibosomal protein L11 methyltransferase 2.1.1 0.894
2nxe SAMRibosomal protein L11 methyltransferase 2.1.1 0.847
3cjt SAHRibosomal protein L11 methyltransferase 2.1.1 0.790
2zbp SAMRibosomal protein L11 methyltransferase 2.1.1 0.775
1nv9 SAHRelease factor glutamine methyltransferase 2.1.1.297 0.730
3b3f SAHHistone-arginine methyltransferase CARM1 / 0.720
2h00 SAHU6 small nuclear RNA (adenine-(43)-N(6))-methyltransferase / 0.719
3lcc SAHThiocyanate methyltransferase 1 / 0.719
4gek GEKCarboxy-S-adenosyl-L-methionine synthase / 0.716
4lwp SAHArginine N-methyltransferase, putative / 0.713
2y1x SAHHistone-arginine methyltransferase CARM1 / 0.710
4kdr SAHUbiquinone biosynthesis O-methyltransferase / 0.703
5jdz SAHMethyl transferase / 0.701
5je3 SAHMethyl transferase / 0.700
3dmg SAHProbable ribosomal RNA small subunit methyltransferase / 0.699
1nv8 SAMRelease factor glutamine methyltransferase 2.1.1.297 0.696
3go4 SAHUncharacterized protein / 0.696
3wst SAHProtein arginine N-methyltransferase 7 2.1.1 0.690
2bzg SAHThiopurine S-methyltransferase 2.1.1.67 0.689
5je4 SAHMethyl transferase / 0.689
2zwv SAHProbable ribosomal RNA small subunit methyltransferase / 0.688
3qow SAMHistone-lysine N-methyltransferase, H3 lysine-79 specific 2.1.1.43 0.688
2y1w SFGHistone-arginine methyltransferase CARM1 / 0.685
3grr SAHProbable ribosomal RNA small subunit methyltransferase A / 0.685
3p2e SAH16S rRNA (adenine(1408)-N(1))-methyltransferase 2.1.1.180 0.685
5bxy SAHPutative RNA methylase family UPF0020 / 0.685
2v74 SAHHistone-arginine methyltransferase CARM1 / 0.684
3pb3 SAH16S rRNA (adenine(1408)-N(1))-methyltransferase 2.1.1.180 0.683
4hh4 SAHCcbJ / 0.683
1ori SAHProtein arginine N-methyltransferase 1 / 0.682
3dmh SAMProbable ribosomal RNA small subunit methyltransferase / 0.682
4azw SAMO-antigen chain terminator bifunctional methyltransferase/kinase WbdD / 0.682
5dxa SFGHistone-arginine methyltransferase CARM1 / 0.682
3p9k SAHCaffeic acid O-methyltransferase / 0.681
5je2 SAHMethyl transferase / 0.680
4c04 SFGProtein arginine N-methyltransferase 6 / 0.677
3q87 SAMN6 ADENINE SPECIFIC DNA METHYLASE (METHYLTRANSFERASE SUPERFAMILY) / 0.676
2gs9 SAHUncharacterized protein / 0.675
3mte SAM16S rRNA (adenine(1408)-N(1))-methyltransferase 2.1.1.180 0.674
5dx8 SFGHistone-arginine methyltransferase CARM1 / 0.674
4rvd SAMD-mycarose 3-C-methyltransferase / 0.673
5bp9 SAHPutative methyltransferase protein / 0.673
3iei SAHLeucine carboxyl methyltransferase 1 2.1.1.233 0.672
4hc4 SAHProtein arginine N-methyltransferase 6 / 0.672
4qnv GEKtRNA U34 carboxymethyltransferase / 0.672
5dxj SFGHistone-arginine methyltransferase CARM1 / 0.672
1rjd SAMLeucine carboxyl methyltransferase 1 2.1.1.233 0.670
1rje SAHLeucine carboxyl methyltransferase 1 2.1.1.233 0.670
3v97 SAHRibosomal RNA large subunit methyltransferase K/L 2.1.1.173 0.669
3bgi SAHThiopurine S-methyltransferase 2.1.1.67 0.668
4htf SAMtRNA 5-carboxymethoxyuridine methyltransferase / 0.666
3sr4 TT8Histone-lysine N-methyltransferase, H3 lysine-79 specific 2.1.1.43 0.664
1rjg SAHLeucine carboxyl methyltransferase 1 2.1.1.233 0.663
4kwc SAHMethyltransferase domain family / 0.662
4pyn SAHCatechol O-methyltransferase 2.1.1.6 0.662
1f3l SAHProtein arginine N-methyltransferase 3 / 0.660
5dst SAHProtein arginine N-methyltransferase 8 2.1.1 0.660
5e9w SAHmRNA cap guanine-N7 methyltransferase 2.1.1.56 0.660
1qan SAHrRNA adenine N-6-methyltransferase 2.1.1.184 0.658
1sg9 SAMRelease factor glutamine methyltransferase 2.1.1.297 0.657
4qpp SAHProtein arginine N-methyltransferase 6 / 0.657
4x7y SAHMycinamicin III 3''-O-methyltransferase 2.1.1.237 0.657
4ckc SAHmRNA-capping enzyme catalytic subunit 2.1.1.56 0.656
2p35 SAHTrans-aconitate 2-methyltransferase / 0.655
3dlc SAMSAM (And some other nucleotide) binding motif:Generic methyltransferase / 0.655
4qnu GEKtRNA U34 carboxymethyltransferase / 0.655
5dx1 SFGHistone-arginine methyltransferase CARM1 / 0.655
2i62 SAHNicotinamide N-methyltransferase 2.1.1.1 0.654
5dwq SFGHistone-arginine methyltransferase CARM1 / 0.654
5fa5 MTAProtein arginine N-methyltransferase 5 / 0.654
4dcm SAMRibosomal RNA large subunit methyltransferase G 2.1.1.174 0.652
2zfu SAHRibosomal RNA-processing protein 8 / 0.650
3fri SAH16S rRNA methylase / 0.650
3sso SAHMycinamicin VI 2''-O-methyltransferase / 0.650