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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
1jr4 CL4 Catechol O-methyltransferase 2.1.1.6

Complex with similar interaction patterns:

PDB ID HET Uniprot Name EC Number Binding Mode
Similarity		 Align
1jr4 CL4Catechol O-methyltransferase 2.1.1.6 1.106
3nwb 659Catechol O-methyltransferase 2.1.1.6 0.942
3oe4 610Catechol O-methyltransferase 2.1.1.6 0.925
3hvk 719Catechol O-methyltransferase 2.1.1.6 0.914
3hvi 619Catechol O-methyltransferase 2.1.1.6 0.912
3oe5 611Catechol O-methyltransferase 2.1.1.6 0.871
3ozt OZZCatechol O-methyltransferase 2.1.1.6 0.867
3r6t LU1Catechol O-methyltransferase 2.1.1.6 0.846
3nw9 637Catechol O-methyltransferase 2.1.1.6 0.839
3ozs OZSCatechol O-methyltransferase 2.1.1.6 0.825
3nwe 662Catechol O-methyltransferase 2.1.1.6 0.778
3a7d FBNCatechol O-methyltransferase 2.1.1.6 0.776
5fhq DNCCatechol O-methyltransferase 2.1.1.6 0.739
3ozr OZRCatechol O-methyltransferase 2.1.1.6 0.731
2q28 ADPOxalyl-CoA decarboxylase 4.1.1.8 0.711
3u81 SAHCatechol O-methyltransferase 2.1.1.6 0.711
4pyn SAHCatechol O-methyltransferase 2.1.1.6 0.711
2zth SAMCatechol O-methyltransferase 2.1.1.6 0.708
2ji9 ADPOxalyl-CoA decarboxylase 4.1.1.8 0.703
4ymg SAMPutative SAM-dependent O-methyltranferase / 0.702
2zvj KOMCatechol O-methyltransferase 2.1.1.6 0.701
4tlx FDAKtzI / 0.694
3grv ADNProbable ribosomal RNA small subunit methyltransferase A / 0.689
4tlz FADKtzI / 0.686
1ahh NAD7-alpha-hydroxysteroid dehydrogenase 1.1.1.159 0.685
1sqf SAMRibosomal RNA small subunit methyltransferase B 2.1.1.176 0.684
2o07 MTASpermidine synthase 2.5.1.16 0.683
3c3y SAHO-methyltransferase / 0.683
2yvl SAMtRNA (adenine(58)-N(1))-methyltransferase TrmI / 0.682
1y8q ATPSUMO-activating enzyme subunit 2 6.3.2 0.681
2hnk SAHSAM-dependent O-methyltransferase / 0.680
1qaq SFGrRNA adenine N-6-methyltransferase 2.1.1.184 0.679
4icy FADPgaE / 0.679
1ve3 SAMUncharacterized protein / 0.678
3grr SAHProbable ribosomal RNA small subunit methyltransferase A / 0.678
4pyo SAHCatechol O-methyltransferase 2.1.1.6 0.678
2jib ADPOxalyl-CoA decarboxylase 4.1.1.8 0.677
3lcc SAHThiocyanate methyltransferase 1 / 0.675
5ahk FADAcetolactate synthase II, large subunit / 0.675
5ccb SAHtRNA (adenine(58)-N(1))-methyltransferase catalytic subunit TRMT61A 2.1.1.220 0.675
4a99 FADTetX family tetracycline inactivation enzyme / 0.674
10mh SAHModification methylase HhaI 2.1.1.37 0.673
4nec SAHPutative SAM-dependent methyltransferase / 0.673
2hms NAIKtr system potassium uptake protein A / 0.672
4krh SAMPhosphoethanolamine N-methyltransferase 2 / 0.671
2c31 ADPOxalyl-CoA decarboxylase 4.1.1.8 0.669
2p35 SAHTrans-aconitate 2-methyltransferase / 0.669
2uyh SAHModification methylase HhaI 2.1.1.37 0.669
2z6u SAHModification methylase HhaI 2.1.1.37 0.669
4uy6 SAHHistidine N-alpha-methyltransferase / 0.669
5ccx SAHtRNA (adenine(58)-N(1))-methyltransferase catalytic subunit TRMT61A 2.1.1.220 0.669
1jki NAIInositol-3-phosphate synthase 5.5.1.4 0.667
1boo SAHModification methylase PvuII 2.1.1.113 0.666
2ji6 ADPOxalyl-CoA decarboxylase 4.1.1.8 0.665
2ji7 ADPOxalyl-CoA decarboxylase 4.1.1.8 0.665
4tm3 FADKtzI / 0.665
3bwc SAMSpermidine synthase, putative / 0.664
4fgz SAHPhosphoethanolamine N-methyltransferase / 0.664
3orh SAHGuanidinoacetate N-methyltransferase 2.1.1.2 0.662
4obw SAM2-methoxy-6-polyprenyl-1,4-benzoquinol methylase, mitochondrial / 0.662
1kvr NADUDP-glucose 4-epimerase 5.1.3.2 0.660
4kwc SAHMethyltransferase domain family / 0.660
5fa5 MTAProtein arginine N-methyltransferase 5 / 0.660
2gew FADCholesterol oxidase 1.1.3.6 0.659
2np7 NEAModification methylase TaqI 2.1.1.72 0.659
2q1s NAIPutative nucleotide sugar epimerase/ dehydratase / 0.659
2gmh FADElectron transfer flavoprotein-ubiquinone oxidoreductase, mitochondrial 1.5.5.1 0.658
4gqb 0XUProtein arginine N-methyltransferase 5 / 0.658
5cku FADL-ornithine N(5)-monooxygenase / 0.658
1rjd SAMLeucine carboxyl methyltransferase 1 2.1.1.233 0.657
3sgl SAMtRNA 5-methylaminomethyl-2-thiouridine biosynthesis bifunctional protein MnmC / 0.657
2q0l FADThioredoxin reductase 1.8.1.9 0.655
3ou6 SAMSAM-dependent methyltransferase / 0.655
3emd SFGMethyltransferase / 0.654
3ldg SAHUncharacterized protein / 0.654
4gf5 SAHCalS11 / 0.654
2pan FADGlyoxylate carboligase 4.1.1.47 0.653
4c04 SFGProtein arginine N-methyltransferase 6 / 0.653
4yv2 S4MSpermidine synthase, putative / 0.653
2pwy SAHtRNA (adenine(58)-N(1))-methyltransferase TrmI 2.1.1.220 0.652
3ou2 SAHSAM-dependent methyltransferase / 0.652
4yag NAIC alpha-dehydrogenase / 0.652
4yuz S4MSpermidine synthase, putative / 0.652
3iv6 SAMUncharacterized protein / 0.651
5jr3 SAHCarminomycin 4-O-methyltransferase DnrK 2.1.1.292 0.651
2fje FADAdenylylsulfate reductase, subunit A (AprA) / 0.650
2xdo FADTetX family tetracycline inactivation enzyme / 0.650
4k5r FADOxygenase / 0.650
5e8j SAHmRNA cap guanine-N7 methyltransferase 2.1.1.56 0.650
9mht SAHModification methylase HhaI 2.1.1.37 0.650