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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
1th8 ADP Anti-sigma F factor

Complex with similar interaction patterns:

PDB ID HET Uniprot Name EC Number Binding Mode
Similarity		 Align
1th8 ADPAnti-sigma F factor / 0.935
4prx ADPDNA gyrase subunit B / 0.795
4prv ADPDNA gyrase subunit B / 0.771
1i5b ANPChemotaxis protein CheA 2.7.13.3 0.766
1i59 ANPChemotaxis protein CheA 2.7.13.3 0.765
1i5a ACPChemotaxis protein CheA 2.7.13.3 0.761
4wuc ANPDNA gyrase subunit B / 0.759
4wud ANPDNA gyrase subunit B / 0.755
3a0t ADPSensor histidine kinase / 0.748
2zkj ADP[Pyruvate dehydrogenase (acetyl-transferring)] kinase isozyme 4, mitochondrial 2.7.11.2 0.744
1z5c ADPType 2 DNA topoisomerase 6 subunit B / 0.739
1i58 ACPChemotaxis protein CheA 2.7.13.3 0.738
3sl2 ATPSensor histidine kinase WalK / 0.738
2bu2 ATP[Pyruvate dehydrogenase (acetyl-transferring)] kinase isozyme 2, mitochondrial 2.7.11.2 0.733
1z5a ADPType 2 DNA topoisomerase 6 subunit B / 0.723
1z59 ADPType 2 DNA topoisomerase 6 subunit B / 0.717
3ehj ACPSensor histidine kinase DesK 2.7.13.3 0.715
4r39 ANPBlue-light-activated histidine kinase 2 2.7.13.3 0.711
2bu8 ADP[Pyruvate dehydrogenase (acetyl-transferring)] kinase isozyme 2, mitochondrial 2.7.11.2 0.708
1nhh ANPDNA mismatch repair protein MutL / 0.707
1thn ADPAnti-sigma F factor / 0.701
4gt8 ADPSensor protein VraS 2.7.13.3 0.701
4r3a ANPBlue-light-activated histidine kinase 2 2.7.13.3 0.690
1mx0 ANPType 2 DNA topoisomerase 6 subunit B / 0.688
1gjv AGS[3-methyl-2-oxobutanoate dehydrogenase [lipoamide]] kinase, mitochondrial 2.7.11.4 0.687
4xc0 ACPHeat shock cognate 90 kDa protein / 0.680
5exd TPPOxalate oxidoreductase subunit alpha / 0.676
5exd TPPOxalate oxidoreductase subunit beta / 0.676
3zkd ANPDNA gyrase subunit B / 0.674
3crl ANP[Pyruvate dehydrogenase (acetyl-transferring)] kinase isozyme 2, mitochondrial 2.7.11.2 0.673
5ahk TPPAcetolactate synthase II, large subunit / 0.673
4xcl AGSHeat shock cognate 90 kDa protein / 0.672
4oau ADP2-5A-dependent ribonuclease 3.1.26 0.670
1l0o ADPAnti-sigma F factor / 0.666
2o1u ANPEndoplasmin / 0.665
2xcm ADPCytosolic heat shock protein 90 / 0.665
1til ATPAnti-sigma F factor / 0.663
3t2s AGSHeat shock protein HSP 90-alpha / 0.662
5eso TDP2-succinyl-5-enolpyruvyl-6-hydroxy-3-cyclohexene-1-carboxylate synthase / 0.662
1rp7 TZDPyruvate dehydrogenase E1 component 1.2.4.1 0.661
4gm4 TZDBenzoylformate decarboxylase 4.1.1.7 0.659
1i58 ADPChemotaxis protein CheA 2.7.13.3 0.655
2qtc TDKPyruvate dehydrogenase E1 component 1.2.4.1 0.655
4jau ADPSensor histidine kinase / 0.655
4pl9 ADPEthylene receptor 1 / 0.655
3t1k ANPHeat shock protein HSP 90-alpha / 0.652
4gg1 TZDBenzoylformate decarboxylase 4.1.1.7 0.652
4gm1 TZDBenzoylformate decarboxylase 4.1.1.7 0.652
3t0z ATPHeat shock protein HSP 90-alpha / 0.651