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sc-PDB

An Annotated Database of Druggable Binding Sites from the Protein DataBank

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Distribution of Binding site similarity measured by Shaper
You can zoom onto the graph by using the mouse to make a selection

Binding Sites are compared using Shaper.
For more information, please see the following publication: Desaphy J. et al. Comparison and Druggability Prediction of protein-Ligand Binding sites from pharmacophore-annotated cavity shapes J. Chem. Inf. Model., 2012, 52(8), pp2287-2299
Binding Sites are considered as similar when the similarity value is greater than 0.44

Reference Protein Data Bank Entry :
PDB IDHETUniprot NameEC Number
1z5cADPType 2 DNA topoisomerase 6 subunit B

Complex with similar binding sites

PDB ID HET Uniprot Name EC Number Binding Site
Similarity		 Align
1z5cADPType 2 DNA topoisomerase 6 subunit B/1.000
1z5aADPType 2 DNA topoisomerase 6 subunit B/0.568
1mx0ANPType 2 DNA topoisomerase 6 subunit B/0.560
4r1fADPDNA topoisomerase 2-alpha5.99.1.30.539
1zxnADPDNA topoisomerase 2-alpha5.99.1.30.522
1zxmANPDNA topoisomerase 2-alpha5.99.1.30.513
2e0aANP[Pyruvate dehydrogenase (acetyl-transferring)] kinase isozyme 4, mitochondrial2.7.11.20.512
3d2rADP[Pyruvate dehydrogenase (acetyl-transferring)] kinase isozyme 4, mitochondrial2.7.11.20.510
1gjvAGS[3-methyl-2-oxobutanoate dehydrogenase [lipoamide]] kinase, mitochondrial2.7.11.40.504
2zkjADP[Pyruvate dehydrogenase (acetyl-transferring)] kinase isozyme 4, mitochondrial2.7.11.20.497
2zdyADP[Pyruvate dehydrogenase (acetyl-transferring)] kinase isozyme 4, mitochondrial2.7.11.20.495
1nhhANPDNA mismatch repair protein MutL/0.494
1pvgANPDNA topoisomerase 25.99.1.30.489
1tilATPAnti-sigma F factor/0.484
1l0oADPAnti-sigma F factor/0.477
1thnADPAnti-sigma F factor/0.467
4ivgANPTNF receptor-associated protein 1/0.460
1i59ANPChemotaxis protein CheA2.7.13.30.452
3sl2ATPSensor histidine kinase WalK/0.451
3a0tADPSensor histidine kinase/0.445