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sc-PDB

An Annotated Database of Druggable Binding Sites from the Protein DataBank

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Distribution of Cavity similarities measured by Shaper
You can zoom onto the graph by using the mouse to make a selection

Cavities 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

Reference Protein Data Bank Entry :
PDB ID HET Uniprot Name EC Number
1mx0ANPType 2 DNA topoisomerase 6 subunit B

Complex with similar cavities

PDB ID HET Uniprot Name EC Number Cavity
Similarity		 Align
1mx0ANPType 2 DNA topoisomerase 6 subunit B/1.000
1z5aADPType 2 DNA topoisomerase 6 subunit B/0.594
1z5cADPType 2 DNA topoisomerase 6 subunit B/0.577
2e0aANP[Pyruvate dehydrogenase (acetyl-transferring)] kinase isozyme 4, mitochondrial2.7.11.20.533
1zxnADPDNA topoisomerase 2-alpha5.99.1.30.524
1zxmANPDNA topoisomerase 2-alpha5.99.1.30.514
2zkjADP[Pyruvate dehydrogenase (acetyl-transferring)] kinase isozyme 4, mitochondrial2.7.11.20.509
4r1fADPDNA topoisomerase 2-alpha5.99.1.30.491
1thnADPAnti-sigma F factor/0.477
3d2rADP[Pyruvate dehydrogenase (acetyl-transferring)] kinase isozyme 4, mitochondrial2.7.11.20.477
1nhhANPDNA mismatch repair protein MutL/0.476
1pvgANPDNA topoisomerase 25.99.1.30.476
1gjvAGS[3-methyl-2-oxobutanoate dehydrogenase [lipoamide]] kinase, mitochondrial2.7.11.40.472
1tilATPAnti-sigma F factor/0.466
1y4sADPChaperone protein HtpG/0.466
1l0oADPAnti-sigma F factor/0.459
4ipeANPTNF receptor-associated protein 1/0.454
2zdyADP[Pyruvate dehydrogenase (acetyl-transferring)] kinase isozyme 4, mitochondrial2.7.11.20.452
4bixADPSensor histidine kinase CpxA/0.450
1i59ANPChemotaxis protein CheA2.7.13.30.446
3upkUD1UDP-N-acetylglucosamine 1-carboxyvinyltransferase/0.446
4xcjADPHeat shock cognate 90 kDa protein/0.445
3gieACPSensor histidine kinase DesK2.7.13.30.441