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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
1z5aADPType 2 DNA topoisomerase 6 subunit B

Complex with similar binding sites

PDB ID HET Uniprot Name EC Number Binding Site
Similarity		 Align
1z5aADPType 2 DNA topoisomerase 6 subunit B/1.000
1z5cADPType 2 DNA topoisomerase 6 subunit B/0.614
1mx0ANPType 2 DNA topoisomerase 6 subunit B/0.599
2e0aANP[Pyruvate dehydrogenase (acetyl-transferring)] kinase isozyme 4, mitochondrial2.7.11.20.530
1nhhANPDNA mismatch repair protein MutL/0.524
1zxmANPDNA topoisomerase 2-alpha5.99.1.30.523
2zkjADP[Pyruvate dehydrogenase (acetyl-transferring)] kinase isozyme 4, mitochondrial2.7.11.20.516
4r1fADPDNA topoisomerase 2-alpha5.99.1.30.499
2zdyADP[Pyruvate dehydrogenase (acetyl-transferring)] kinase isozyme 4, mitochondrial2.7.11.20.497
3d2rADP[Pyruvate dehydrogenase (acetyl-transferring)] kinase isozyme 4, mitochondrial2.7.11.20.497
1gjvAGS[3-methyl-2-oxobutanoate dehydrogenase [lipoamide]] kinase, mitochondrial2.7.11.40.482
3a0tADPSensor histidine kinase/0.480
1zxnADPDNA topoisomerase 2-alpha5.99.1.30.476
1tilATPAnti-sigma F factor/0.475
3r4oFU3Heat shock protein HSP 90-alpha/0.474
1nupNMNNicotinamide/nicotinic acid mononucleotide adenylyltransferase 3/0.469
3t10ACPHeat shock protein HSP 90-alpha/0.468
1byqADPHeat shock protein HSP 90-alpha/0.467
1pvgANPDNA topoisomerase 25.99.1.30.465
2yefANPHeat shock protein HSP 90-alpha/0.461
4b7p9UNHeat shock protein HSP 90-alpha/0.458
3vhaVHAHeat shock protein HSP 90-alpha/0.456
3t2sAGSHeat shock protein HSP 90-alpha/0.455
4ipeANPTNF receptor-associated protein 1/0.455
1jm6ADP[Pyruvate dehydrogenase (acetyl-transferring)] kinase isozyme 2, mitochondrial2.7.11.20.454
4egiB2JHeat shock protein HSP 90-alpha/0.454
1y4sADPChaperone protein HtpG/0.452
2xcmADPCytosolic heat shock protein 90/0.452
1thnADPAnti-sigma F factor/0.449
2iorADPChaperone protein HtpG/0.447
4xclAGSHeat shock cognate 90 kDa protein/0.446
4xcjADPHeat shock cognate 90 kDa protein/0.445
3t1kANPHeat shock protein HSP 90-alpha/0.444
2fxv5GPXanthine phosphoribosyltransferase2.4.2.220.442
2xb5I7TTetracycline repressor protein class D/0.440