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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
4fr0 SAM Arsenic methyltransferase

Complex with similar interaction patterns:

PDB ID HET Uniprot Name EC Number Binding Mode
Similarity		 Align
4fr0 SAMArsenic methyltransferase / 0.959
4nec SAHPutative SAM-dependent methyltransferase / 0.739
3lcc SAHThiocyanate methyltransferase 1 / 0.720
5dxa SFGHistone-arginine methyltransferase CARM1 / 0.720
2qe6 SAMUncharacterized protein / 0.718
5dwq SFGHistone-arginine methyltransferase CARM1 / 0.718
5dxj SFGHistone-arginine methyltransferase CARM1 / 0.714
4azw SAMO-antigen chain terminator bifunctional methyltransferase/kinase WbdD / 0.711
5bp7 SAHSAM-dependent methyltransferase / 0.708
3b3f SAHHistone-arginine methyltransferase CARM1 / 0.707
1nw6 SFGModification methylase RsrI 2.1.1.72 0.706
2bzg SAHThiopurine S-methyltransferase 2.1.1.67 0.705
5epe SAHUncharacterized protein / 0.705
3dmh SAMProbable ribosomal RNA small subunit methyltransferase / 0.702
2y1w SFGHistone-arginine methyltransferase CARM1 / 0.701
2aot SAHHistamine N-methyltransferase 2.1.1.8 0.697
2c31 ADPOxalyl-CoA decarboxylase 4.1.1.8 0.696
2q28 ADPOxalyl-CoA decarboxylase 4.1.1.8 0.696
4hh4 SAHCcbJ / 0.696
3fri SAH16S rRNA methylase / 0.695
4kwc SAHMethyltransferase domain family / 0.694
5e8j SAHmRNA cap guanine-N7 methyltransferase 2.1.1.56 0.693
2ji6 ADPOxalyl-CoA decarboxylase 4.1.1.8 0.691
2nxe SAMRibosomal protein L11 methyltransferase 2.1.1 0.686
1jqd SAHHistamine N-methyltransferase 2.1.1.8 0.685
4gqb 0XUProtein arginine N-methyltransferase 5 / 0.685
3e23 SAMUncharacterized protein / 0.684
2ore SAHDNA adenine methylase 2.1.1.72 0.683
4ce0 SAHProbable O-methyltransferase / 0.683
1eg2 MTAModification methylase RsrI 2.1.1.72 0.681
3v97 SAHRibosomal RNA large subunit methyltransferase K/L 2.1.1.173 0.680
4ax8 SAMO-antigen chain terminator bifunctional methyltransferase/kinase WbdD / 0.680
1nw5 SAMModification methylase RsrI 2.1.1.72 0.679
3ssm SAHMycinamicin VI 2''-O-methyltransferase / 0.679
4gf5 SAHCalS11 / 0.678
2bi7 FADUDP-galactopyranose mutase 5.4.99.9 0.677
2hv9 SFGmRNA cap guanine-N7 methyltransferase 2.1.1.56 0.677
2ji9 ADPOxalyl-CoA decarboxylase 4.1.1.8 0.676
5e9w SAHmRNA cap guanine-N7 methyltransferase 2.1.1.56 0.676
3g8a SAHRibosomal RNA small subunit methyltransferase G / 0.675
2pwy SAHtRNA (adenine(58)-N(1))-methyltransferase TrmI 2.1.1.220 0.670
1l3i SAHProbable cobalt-precorrin-6B C(15)-methyltransferase (decarboxylating) / 0.669
1ri3 SAHmRNA cap guanine-N7 methyltransferase 2.1.1.56 0.669
2i62 SAHNicotinamide N-methyltransferase 2.1.1.1 0.669
1f3l SAHProtein arginine N-methyltransferase 3 / 0.668
2zul SAMProbable ribosomal RNA small subunit methyltransferase / 0.668
3ou2 SAHSAM-dependent methyltransferase / 0.668
4uy6 SAHHistidine N-alpha-methyltransferase / 0.668
2jib ADPOxalyl-CoA decarboxylase 4.1.1.8 0.667
2np7 NEAModification methylase TaqI 2.1.1.72 0.667
4wec NADShort chain dehydrogenase / 0.665
5bp9 SAHPutative methyltransferase protein / 0.665
1p1c SAHGuanidinoacetate N-methyltransferase 2.1.1.2 0.664
3o7w SAMLeucine carboxyl methyltransferase 1 2.1.1.233 0.664
4rto SFGDNA adenine methylase 2.1.1.72 0.664
5je3 SAHMethyl transferase / 0.663
2zwv SAHProbable ribosomal RNA small subunit methyltransferase / 0.661
3vqr FADPutative oxidoreductase / 0.659
3bgv SAHmRNA cap guanine-N7 methyltransferase 2.1.1.56 0.657
4x3q SAHSibL / 0.657
2zzm SAMtRNA (guanine(37)-N1)-methyltransferase Trm5b 2.1.1.228 0.656
2ibt NEAModification methylase TaqI 2.1.1.72 0.654
2o07 MTASpermidine synthase 2.5.1.16 0.654
1wy7 SAHUncharacterized protein / 0.653
2yqz SAMUncharacterized protein / 0.653
5bxy SAHPutative RNA methylase family UPF0020 / 0.653
3ldg SAHUncharacterized protein / 0.652
1khh SAHGuanidinoacetate N-methyltransferase 2.1.1.2 0.651
2ih2 NEAModification methylase TaqI 2.1.1.72 0.651
3atr FDAConserved Archaeal protein / 0.651
4xcx SAHSmall RNA 2'-O-methyltransferase / 0.651
4opc FDAConserved Archaeal protein / 0.650
5jdz SAHMethyl transferase / 0.650