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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
1mx0 ANP Type 2 DNA topoisomerase 6 subunit B

Complex with similar interaction patterns:

PDB ID HET Uniprot Name EC Number Binding Mode
Similarity		 Align
1mx0 ANPType 2 DNA topoisomerase 6 subunit B / 1.236
1z5c ADPType 2 DNA topoisomerase 6 subunit B / 1.013
1pvg ANPDNA topoisomerase 2 5.99.1.3 0.959
4wuc ANPDNA gyrase subunit B / 0.949
4wud ANPDNA gyrase subunit B / 0.929
1zxm ANPDNA topoisomerase 2-alpha 5.99.1.3 0.921
1nhh ANPDNA mismatch repair protein MutL / 0.902
3zkb ANPDNA gyrase subunit B / 0.898
1z5a ADPType 2 DNA topoisomerase 6 subunit B / 0.897
4ivg ANPTNF receptor-associated protein 1 / 0.818
4ipe ANPTNF receptor-associated protein 1 / 0.817
3a0t ADPSensor histidine kinase / 0.803
3zkd ANPDNA gyrase subunit B / 0.788
1gjv AGS[3-methyl-2-oxobutanoate dehydrogenase [lipoamide]] kinase, mitochondrial 2.7.11.4 0.778
1z59 ADPType 2 DNA topoisomerase 6 subunit B / 0.778
4xc0 ACPHeat shock cognate 90 kDa protein / 0.771
1s16 ANPDNA topoisomerase 4 subunit B / 0.770
3crl ANP[Pyruvate dehydrogenase (acetyl-transferring)] kinase isozyme 2, mitochondrial 2.7.11.2 0.766
3h4l ANPDNA mismatch repair protein PMS1 / 0.764
4r1f ADPDNA topoisomerase 2-alpha 5.99.1.3 0.764
4prv ADPDNA gyrase subunit B / 0.762
3t10 ACPHeat shock protein HSP 90-alpha / 0.760
4prx ADPDNA gyrase subunit B / 0.753
3sl2 ATPSensor histidine kinase WalK / 0.751
2e0a ANP[Pyruvate dehydrogenase (acetyl-transferring)] kinase isozyme 4, mitochondrial 2.7.11.2 0.743
3rep ATPIntegrin-linked protein kinase 2.7.11.1 0.741
5f5r ANPHeat shock protein 75 kDa, mitochondrial / 0.731
4r3a ANPBlue-light-activated histidine kinase 2 2.7.13.3 0.728
2bu2 ATP[Pyruvate dehydrogenase (acetyl-transferring)] kinase isozyme 2, mitochondrial 2.7.11.2 0.726
2zkj ADP[Pyruvate dehydrogenase (acetyl-transferring)] kinase isozyme 4, mitochondrial 2.7.11.2 0.726
2ior ADPChaperone protein HtpG / 0.725
1n75 ATPGlutamate--tRNA ligase 6.1.1.17 0.718
4m69 ANPReceptor-interacting serine/threonine-protein kinase 3 2.7.11.1 0.716
1ei1 ANPDNA gyrase subunit B / 0.715
3kmw ATPIntegrin-linked protein kinase 2.7.11.1 0.714
4gqt ADPHeat shock protein 90 / 0.712
2yef ANPHeat shock protein HSP 90-alpha / 0.710
4r39 ANPBlue-light-activated histidine kinase 2 2.7.13.3 0.707
1i58 ACPChemotaxis protein CheA 2.7.13.3 0.701
4dxj 0M9Farnesyl pyrophosphate synthase / 0.701
1cjv DADAdenylate cyclase type 2 / 0.699
1cjv DADAdenylate cyclase type 5 / 0.699
2zdy ADP[Pyruvate dehydrogenase (acetyl-transferring)] kinase isozyme 4, mitochondrial 2.7.11.2 0.699
3t1k ANPHeat shock protein HSP 90-alpha / 0.697
1byq ADPHeat shock protein HSP 90-alpha / 0.695
2pz8 APCNH(3)-dependent NAD(+) synthetase / 0.693
1zxn ADPDNA topoisomerase 2-alpha 5.99.1.3 0.692
1th8 ADPAnti-sigma F factor / 0.688
2v9x DUTdCTP deaminase / 0.686
3t0z ATPHeat shock protein HSP 90-alpha / 0.686
3t2s AGSHeat shock protein HSP 90-alpha / 0.681
4biw ANPSensor histidine kinase CpxA / 0.679
1i59 ANPChemotaxis protein CheA 2.7.13.3 0.677
2xk2 ADPHeat shock protein HSP 90-alpha / 0.674
4fvr ATPTyrosine-protein kinase JAK2 / 0.674
2c2a ADPSensor histidine kinase / 0.673
1i5a ACPChemotaxis protein CheA 2.7.13.3 0.672
5i4n ATPTyrosine-protein kinase JAK2 / 0.672
1ih8 APCNH(3)-dependent NAD(+) synthetase 6.3.1.5 0.671
4xcj ADPHeat shock cognate 90 kDa protein / 0.666
4col DTPUncharacterized protein / 0.665
2zev B71Geranylgeranyl pyrophosphate synthase / 0.663
4fvq ATPTyrosine-protein kinase JAK2 / 0.662
5c03 AGSNon-receptor tyrosine-protein kinase TYK2 2.7.10.2 0.662
2xcm ADPCytosolic heat shock protein 90 / 0.661
3ruv ANPChaperonin / 0.661
1yt0 ADPEndoplasmin / 0.660
2y6p CTP3-deoxy-manno-octulosonate cytidylyltransferase 2.7.7.38 0.660
5cns DATRibonucleoside-diphosphate reductase 1 subunit alpha 1.17.4.1 0.659
2bu8 ADP[Pyruvate dehydrogenase (acetyl-transferring)] kinase isozyme 2, mitochondrial 2.7.11.2 0.658
2f94 BFQFarnesyl pyrophosphate synthase 2.5.1.10 0.658
3wt0 ATPCell division protein FtsA / 0.658
2o1u ANPEndoplasmin / 0.657
1b38 ATPCyclin-dependent kinase 2 2.7.11.22 0.656
1til ATPAnti-sigma F factor / 0.656
3ruq ADPChaperonin / 0.655
4dem YS4Farnesyl pyrophosphate synthase 2.5.1.10 0.655
3s3t ATPUniversal stress protein / 0.654
3w2w ATPCRISPR system Cmr subunit Cmr2 / 0.654
4gv8 DUPDUTPase / 0.654
4iij GTPTubulin alpha-1B chain / 0.654
4xcl AGSHeat shock cognate 90 kDa protein / 0.653
4zse ANPEpidermal growth factor receptor 2.7.10.1 0.653
4ffb GTPTubulin alpha-1 chain / 0.652
1id0 ANPSensor protein PhoQ 2.7.13.3 0.651
1v11 TDP2-oxoisovalerate dehydrogenase subunit alpha, mitochondrial 1.2.4.4 0.651
1i5b ANPChemotaxis protein CheA 2.7.13.3 0.650
4c5b ADPD-alanine--D-alanine ligase B 6.3.2.4 0.650