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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
1z59 ADP Type 2 DNA topoisomerase 6 subunit B

Complex with similar interaction patterns:

PDB ID HET Uniprot Name EC Number Binding Mode
Similarity		 Align
1z59 ADPType 2 DNA topoisomerase 6 subunit B / 0.845
1mx0 ANPType 2 DNA topoisomerase 6 subunit B / 0.778
1z5c ADPType 2 DNA topoisomerase 6 subunit B / 0.754
2ior ADPChaperone protein HtpG / 0.735
4prv ADPDNA gyrase subunit B / 0.730
4xc0 ACPHeat shock cognate 90 kDa protein / 0.726
1th8 ADPAnti-sigma F factor / 0.717
4wuc ANPDNA gyrase subunit B / 0.715
3a0t ADPSensor histidine kinase / 0.714
1z5a ADPType 2 DNA topoisomerase 6 subunit B / 0.711
3crl ANP[Pyruvate dehydrogenase (acetyl-transferring)] kinase isozyme 2, mitochondrial 2.7.11.2 0.705
1i58 ACPChemotaxis protein CheA 2.7.13.3 0.704
2bu2 ATP[Pyruvate dehydrogenase (acetyl-transferring)] kinase isozyme 2, mitochondrial 2.7.11.2 0.703
3zkb ANPDNA gyrase subunit B / 0.703
4xcj ADPHeat shock cognate 90 kDa protein / 0.702
5f5r ANPHeat shock protein 75 kDa, mitochondrial / 0.701
1id0 ANPSensor protein PhoQ 2.7.13.3 0.696
2xk2 ADPHeat shock protein HSP 90-alpha / 0.695
4prx ADPDNA gyrase subunit B / 0.694
3t0z ATPHeat shock protein HSP 90-alpha / 0.691
1pvg ANPDNA topoisomerase 2 5.99.1.3 0.689
2bu8 ADP[Pyruvate dehydrogenase (acetyl-transferring)] kinase isozyme 2, mitochondrial 2.7.11.2 0.688
1yt0 ADPEndoplasmin / 0.687
4wud ANPDNA gyrase subunit B / 0.687
3ehj ACPSensor histidine kinase DesK 2.7.13.3 0.685
2yef ANPHeat shock protein HSP 90-alpha / 0.683
3t1k ANPHeat shock protein HSP 90-alpha / 0.679
4ipe ANPTNF receptor-associated protein 1 / 0.675
1nhh ANPDNA mismatch repair protein MutL / 0.672
3sl2 ATPSensor histidine kinase WalK / 0.670
4gqt ADPHeat shock protein 90 / 0.669
1byq ADPHeat shock protein HSP 90-alpha / 0.667
1i5a ACPChemotaxis protein CheA 2.7.13.3 0.665
3t10 ACPHeat shock protein HSP 90-alpha / 0.664
4ivg ANPTNF receptor-associated protein 1 / 0.664
1i59 ANPChemotaxis protein CheA 2.7.13.3 0.662
2e0a ANP[Pyruvate dehydrogenase (acetyl-transferring)] kinase isozyme 4, mitochondrial 2.7.11.2 0.656
4xcl AGSHeat shock cognate 90 kDa protein / 0.655
1gjv AGS[3-methyl-2-oxobutanoate dehydrogenase [lipoamide]] kinase, mitochondrial 2.7.11.4 0.654
3d2r ADP[Pyruvate dehydrogenase (acetyl-transferring)] kinase isozyme 4, mitochondrial 2.7.11.2 0.654
2xcm ADPCytosolic heat shock protein 90 / 0.653
2yy8 MTAtRNA (cytidine(56)-2'-O)-methyltransferase / 0.651