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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
1z5a ADP Type 2 DNA topoisomerase 6 subunit B

Complex with similar interaction patterns:

PDB ID HET Uniprot Name EC Number Binding Mode
Similarity		 Align
1z5a ADPType 2 DNA topoisomerase 6 subunit B / 1.103
1z5c ADPType 2 DNA topoisomerase 6 subunit B / 0.984
1mx0 ANPType 2 DNA topoisomerase 6 subunit B / 0.897
3a0t ADPSensor histidine kinase / 0.832
4prx ADPDNA gyrase subunit B / 0.825
4wud ANPDNA gyrase subunit B / 0.790
4wuc ANPDNA gyrase subunit B / 0.773
4prv ADPDNA gyrase subunit B / 0.771
3zkb ANPDNA gyrase subunit B / 0.769
1nhh ANPDNA mismatch repair protein MutL / 0.765
2zkj ADP[Pyruvate dehydrogenase (acetyl-transferring)] kinase isozyme 4, mitochondrial 2.7.11.2 0.758
3d2r ADP[Pyruvate dehydrogenase (acetyl-transferring)] kinase isozyme 4, mitochondrial 2.7.11.2 0.742
1pvg ANPDNA topoisomerase 2 5.99.1.3 0.738
3zkd ANPDNA gyrase subunit B / 0.734
1th8 ADPAnti-sigma F factor / 0.723
1z59 ADPType 2 DNA topoisomerase 6 subunit B / 0.711
2bu2 ATP[Pyruvate dehydrogenase (acetyl-transferring)] kinase isozyme 2, mitochondrial 2.7.11.2 0.706
1jm6 ADP[Pyruvate dehydrogenase (acetyl-transferring)] kinase isozyme 2, mitochondrial 2.7.11.2 0.702
1i59 ANPChemotaxis protein CheA 2.7.13.3 0.699
1zxn ADPDNA topoisomerase 2-alpha 5.99.1.3 0.696
3h4l ANPDNA mismatch repair protein PMS1 / 0.696
1i5a ACPChemotaxis protein CheA 2.7.13.3 0.692
2zdy ADP[Pyruvate dehydrogenase (acetyl-transferring)] kinase isozyme 4, mitochondrial 2.7.11.2 0.689
1i5b ANPChemotaxis protein CheA 2.7.13.3 0.687
1thn ADPAnti-sigma F factor / 0.677
1y4s ADPChaperone protein HtpG / 0.661
2bu8 ADP[Pyruvate dehydrogenase (acetyl-transferring)] kinase isozyme 2, mitochondrial 2.7.11.2 0.656
3hdy GDUUDP-galactopyranose mutase / 0.655
3t2s AGSHeat shock protein HSP 90-alpha / 0.654
1i58 ACPChemotaxis protein CheA 2.7.13.3 0.653
3n0z 3ATAdenylate cyclase 2 / 0.653
4r1f ADPDNA topoisomerase 2-alpha 5.99.1.3 0.650