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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
3cjt SAH Ribosomal protein L11 methyltransferase 2.1.1

Complex with similar interaction patterns:

PDB ID HET Uniprot Name EC Number Binding Mode
Similarity		 Align
3cjt SAHRibosomal protein L11 methyltransferase 2.1.1 0.988
3egv SAHRibosomal protein L11 methyltransferase 2.1.1 0.935
2nxe SAMRibosomal protein L11 methyltransferase 2.1.1 0.899
3cjq SAHRibosomal protein L11 methyltransferase 2.1.1 0.790
4dcm SAMRibosomal RNA large subunit methyltransferase G 2.1.1.174 0.779
2zbp SAMRibosomal protein L11 methyltransferase 2.1.1 0.775
3b3f SAHHistone-arginine methyltransferase CARM1 / 0.757
5je2 SAHMethyl transferase / 0.752
4hc4 SAHProtein arginine N-methyltransferase 6 / 0.749
2h00 SAHU6 small nuclear RNA (adenine-(43)-N(6))-methyltransferase / 0.745
4lwp SAHArginine N-methyltransferase, putative / 0.738
1nv9 SAHRelease factor glutamine methyltransferase 2.1.1.297 0.734
3qow SAMHistone-lysine N-methyltransferase, H3 lysine-79 specific 2.1.1.43 0.734
3go4 SAHUncharacterized protein / 0.732
2v74 SAHHistone-arginine methyltransferase CARM1 / 0.731
1f3l SAHProtein arginine N-methyltransferase 3 / 0.729
5je3 SAHMethyl transferase / 0.727
3bgi SAHThiopurine S-methyltransferase 2.1.1.67 0.726
5jdz SAHMethyl transferase / 0.726
3lcc SAHThiocyanate methyltransferase 1 / 0.724
5bp9 SAHPutative methyltransferase protein / 0.719
5dst SAHProtein arginine N-methyltransferase 8 2.1.1 0.719
3p9k SAHCaffeic acid O-methyltransferase / 0.718
5bxy SAHPutative RNA methylase family UPF0020 / 0.716
1nv8 SAMRelease factor glutamine methyltransferase 2.1.1.297 0.715
1ori SAHProtein arginine N-methyltransferase 1 / 0.714
5icf SAH(S)-norcoclaurine 6-O-methyltransferase / 0.713
3sr4 TT8Histone-lysine N-methyltransferase, H3 lysine-79 specific 2.1.1.43 0.712
5je4 SAHMethyl transferase / 0.712
2gs9 SAHUncharacterized protein / 0.710
2yqz SAMUncharacterized protein / 0.708
5e9w SAHmRNA cap guanine-N7 methyltransferase 2.1.1.56 0.707
3grr SAHProbable ribosomal RNA small subunit methyltransferase A / 0.706
4gek GEKCarboxy-S-adenosyl-L-methionine synthase / 0.705
3p2e SAH16S rRNA (adenine(1408)-N(1))-methyltransferase 2.1.1.180 0.704
3dmg SAHProbable ribosomal RNA small subunit methyltransferase / 0.703
3v97 SAHRibosomal RNA large subunit methyltransferase K/L 2.1.1.173 0.702
5dxa SFGHistone-arginine methyltransferase CARM1 / 0.700
4azw SAMO-antigen chain terminator bifunctional methyltransferase/kinase WbdD / 0.698
4qpp SAHProtein arginine N-methyltransferase 6 / 0.698
3gry SAMProbable ribosomal RNA small subunit methyltransferase A / 0.697
4c04 SFGProtein arginine N-methyltransferase 6 / 0.696
3dmh SAMProbable ribosomal RNA small subunit methyltransferase / 0.695
4dmg SAMUncharacterized protein / 0.694
2bzg SAHThiopurine S-methyltransferase 2.1.1.67 0.692
4c03 SFGProtein arginine N-methyltransferase 6 / 0.692
3wst SAHProtein arginine N-methyltransferase 7 2.1.1 0.691
4rvd SAMD-mycarose 3-C-methyltransferase / 0.691
5ccb SAHtRNA (adenine(58)-N(1))-methyltransferase catalytic subunit TRMT61A 2.1.1.220 0.691
2y1x SAHHistone-arginine methyltransferase CARM1 / 0.690
4ckc SAHmRNA-capping enzyme catalytic subunit 2.1.1.56 0.689
1qaq SFGrRNA adenine N-6-methyltransferase 2.1.1.184 0.688
5dwq SFGHistone-arginine methyltransferase CARM1 / 0.686
5dxj SFGHistone-arginine methyltransferase CARM1 / 0.686
2zth SAMCatechol O-methyltransferase 2.1.1.6 0.685
4iwn GEKCarboxy-S-adenosyl-L-methionine synthase / 0.684
3cbg SAHO-methyltransferase / 0.683
3uj8 SFGPhosphoethanolamine N-methyltransferase / 0.683
4kwc SAHMethyltransferase domain family / 0.682
2hnk SAHSAM-dependent O-methyltransferase / 0.679
5ccx SAHtRNA (adenine(58)-N(1))-methyltransferase catalytic subunit TRMT61A 2.1.1.220 0.679
3dh0 SAMUncharacterized protein / 0.678
1orh SAHProtein arginine N-methyltransferase 1 / 0.676
3tos SAHCalS11 / 0.676
4l7v SAHProtein-L-isoaspartate O-methyltransferase / 0.676
5fa8 SAMRibosomal protein L11 methyltransferase, putative / 0.676
1rje SAHLeucine carboxyl methyltransferase 1 2.1.1.233 0.675
3fri SAH16S rRNA methylase / 0.675
3grv ADNProbable ribosomal RNA small subunit methyltransferase A / 0.675
2y1w SFGHistone-arginine methyltransferase CARM1 / 0.674
2zcj SAHModification methylase HhaI 2.1.1.37 0.674
2zwv SAHProbable ribosomal RNA small subunit methyltransferase / 0.674
4gf5 SAHCalS11 / 0.673
5fa5 MTAProtein arginine N-methyltransferase 5 / 0.673
4qnv GEKtRNA U34 carboxymethyltransferase / 0.672
2zfu SAHRibosomal RNA-processing protein 8 / 0.671
3bgv SAHmRNA cap guanine-N7 methyltransferase 2.1.1.56 0.671
3bwc SAMSpermidine synthase, putative / 0.670
3iei SAHLeucine carboxyl methyltransferase 1 2.1.1.233 0.670
4x7y SAHMycinamicin III 3''-O-methyltransferase 2.1.1.237 0.670
1rjd SAMLeucine carboxyl methyltransferase 1 2.1.1.233 0.669
2pwy SAHtRNA (adenine(58)-N(1))-methyltransferase TrmI 2.1.1.220 0.669
4gqb 0XUProtein arginine N-methyltransferase 5 / 0.668
4e2x SAHMethyltransferase / 0.666
4hh4 SAHCcbJ / 0.666
1r00 SAHAclacinomycin 10-hydroxylase RdmB 4.1.1 0.665
1ri3 SAHmRNA cap guanine-N7 methyltransferase 2.1.1.56 0.665
1sqf SAMRibosomal RNA small subunit methyltransferase B 2.1.1.176 0.665
2p35 SAHTrans-aconitate 2-methyltransferase / 0.665
2qe6 SAMUncharacterized protein / 0.665
4pyo SAHCatechol O-methyltransferase 2.1.1.6 0.665
1nw3 SAMHistone-lysine N-methyltransferase, H3 lysine-79 specific 2.1.1.43 0.664
1sg9 SAMRelease factor glutamine methyltransferase 2.1.1.297 0.664
4m37 SAHProtein arginine N-methyltransferase 7 2.1.1 0.664
4pyn SAHCatechol O-methyltransferase 2.1.1.6 0.664
4xcx SAHSmall RNA 2'-O-methyltransferase / 0.664
2i62 SAHNicotinamide N-methyltransferase 2.1.1.1 0.663
3tr6 SAHO-methyltransferase / 0.663
4mwz SAMPhosphoethanolamine N-methyltransferase, putative / 0.663
4qnu GEKtRNA U34 carboxymethyltransferase / 0.663
4iv8 SAMPhosphoethanolamine N-methyltransferase,putative / 0.662
4iv0 SAMPhosphoethanolamine N-methyltransferase, putative / 0.661
4kdr SAHUbiquinone biosynthesis O-methyltransferase / 0.660
5dx1 SFGHistone-arginine methyltransferase CARM1 / 0.660
4kvz SAHPtnL protein / 0.659
1bc5 SAHChemotaxis protein methyltransferase 2.1.1.80 0.658
2zw9 SAMtRNA wybutosine-synthesizing protein 4 2.1.1.290 0.657
2eju SAHtRNA (guanine(26)-N(2))-dimethyltransferase / 0.656
2ibt NEAModification methylase TaqI 2.1.1.72 0.656
1p1b SAHGuanidinoacetate N-methyltransferase 2.1.1.2 0.655
2bh2 SAH23S rRNA (uracil(1939)-C(5))-methyltransferase RlmD / 0.653
4fp9 SAM5-methylcytosine rRNA methyltransferase NSUN4 2.1.1 0.652
4krh SAMPhosphoethanolamine N-methyltransferase 2 / 0.652
5dx8 SFGHistone-arginine methyltransferase CARM1 / 0.652
3c3y SAHO-methyltransferase / 0.651
3mte SAM16S rRNA (adenine(1408)-N(1))-methyltransferase 2.1.1.180 0.651
2plw SAMRibosomal RNA methyltransferase, putative / 0.650
3lst SAHCalO1 / 0.650
3s1s SAHRestriction endonuclease BpuSI / 0.650