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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
1qmf KEF Penicillin-binding protein 2x

Complex with similar interaction patterns:

PDB ID HET Uniprot Name EC Number Binding Mode
Similarity		 Align
1qmf KEFPenicillin-binding protein 2x / 0.873
4bb3 KKAIsopenicillin N synthase 1.21.3.1 0.694
1u5a BIKL-lactate dehydrogenase 1.1.1.27 0.689
4i4b 1CV3-hydroxy-3-methylglutaryl-coenzyme A reductase 1.1.1.88 0.673
2hvd ADPNucleoside diphosphate kinase A 2.7.4.6 0.671
2g1m 4HGEgl nine homolog 1 / 0.670
2y60 M8FIsopenicillin N synthase 1.21.3.1 0.670
3r6c 17NAnthranilate phosphoribosyltransferase / 0.668
4l8u 9AZSerum albumin / 0.668
2jb4 A14Isopenicillin N synthase 1.21.3.1 0.664
1drt PCVClavaminate synthase 1 1.14.11.21 0.662
2y6f M9FIsopenicillin N synthase 1.21.3.1 0.659
1khz ADVADP-ribose pyrophosphatase 3.6.1.13 0.658
4bqw QNMEgl nine homolog 1 / 0.658
4kdr SAHUbiquinone biosynthesis O-methyltransferase / 0.658
3fvu IACKynurenine--oxoglutarate transaminase 1 2.6.1.7 0.656
1ejb INJ6,7-dimethyl-8-ribityllumazine synthase 2.5.1.78 0.655
1n38 U3HRNA-directed RNA polymerase lambda-3 2.7.7.48 0.655
1hb3 SCVIsopenicillin N synthase 1.21.3.1 0.653
1v8l APRADP-ribose pyrophosphatase / 0.653
1t4c COAFormyl-CoA:oxalate CoA-transferase / 0.652