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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
3sl2 ATP Sensor histidine kinase WalK

Complex with similar interaction patterns:

PDB ID HET Uniprot Name EC Number Binding Mode
Similarity		 Align
3sl2 ATPSensor histidine kinase WalK / 1.098
1gjv AGS[3-methyl-2-oxobutanoate dehydrogenase [lipoamide]] kinase, mitochondrial 2.7.11.4 0.861
4biw ANPSensor histidine kinase CpxA / 0.842
2e0a ANP[Pyruvate dehydrogenase (acetyl-transferring)] kinase isozyme 4, mitochondrial 2.7.11.2 0.839
3a0t ADPSensor histidine kinase / 0.820
3t0z ATPHeat shock protein HSP 90-alpha / 0.803
4wud ANPDNA gyrase subunit B / 0.800
3d2r ADP[Pyruvate dehydrogenase (acetyl-transferring)] kinase isozyme 4, mitochondrial 2.7.11.2 0.791
1pvg ANPDNA topoisomerase 2 5.99.1.3 0.787
2c2a ADPSensor histidine kinase / 0.784
4prv ADPDNA gyrase subunit B / 0.772
1z5c ADPType 2 DNA topoisomerase 6 subunit B / 0.771
2bu2 ATP[Pyruvate dehydrogenase (acetyl-transferring)] kinase isozyme 2, mitochondrial 2.7.11.2 0.770
2zkj ADP[Pyruvate dehydrogenase (acetyl-transferring)] kinase isozyme 4, mitochondrial 2.7.11.2 0.755
3t10 ACPHeat shock protein HSP 90-alpha / 0.754
1mx0 ANPType 2 DNA topoisomerase 6 subunit B / 0.751
4wuc ANPDNA gyrase subunit B / 0.751
1nhh ANPDNA mismatch repair protein MutL / 0.747
3crl ANP[Pyruvate dehydrogenase (acetyl-transferring)] kinase isozyme 2, mitochondrial 2.7.11.2 0.739
1th8 ADPAnti-sigma F factor / 0.738
4ivg ANPTNF receptor-associated protein 1 / 0.731
4jau ADPSensor histidine kinase / 0.724
5f5r ANPHeat shock protein 75 kDa, mitochondrial / 0.722
1i58 ACPChemotaxis protein CheA 2.7.13.3 0.720
4r39 ANPBlue-light-activated histidine kinase 2 2.7.13.3 0.720
4biz ADPSensor histidine kinase CpxA / 0.716
1jm6 ADP[Pyruvate dehydrogenase (acetyl-transferring)] kinase isozyme 2, mitochondrial 2.7.11.2 0.712
3h4l ANPDNA mismatch repair protein PMS1 / 0.709
4xc0 ACPHeat shock cognate 90 kDa protein / 0.705
1i5a ACPChemotaxis protein CheA 2.7.13.3 0.704
1i5b ANPChemotaxis protein CheA 2.7.13.3 0.703
3t2s AGSHeat shock protein HSP 90-alpha / 0.698
1i59 ANPChemotaxis protein CheA 2.7.13.3 0.697
4gt8 ADPSensor protein VraS 2.7.13.3 0.697
4r1f ADPDNA topoisomerase 2-alpha 5.99.1.3 0.693
4ipe ANPTNF receptor-associated protein 1 / 0.689
2yef ANPHeat shock protein HSP 90-alpha / 0.687
1zxn ADPDNA topoisomerase 2-alpha 5.99.1.3 0.686
3zkb ANPDNA gyrase subunit B / 0.686
4r3a ANPBlue-light-activated histidine kinase 2 2.7.13.3 0.684
3t1k ANPHeat shock protein HSP 90-alpha / 0.682
1til ATPAnti-sigma F factor / 0.681
4pl9 ADPEthylene receptor 1 / 0.681
1id0 ANPSensor protein PhoQ 2.7.13.3 0.680
4xfj ANPArgininosuccinate synthase / 0.679
1b38 ATPCyclin-dependent kinase 2 2.7.11.22 0.678
1thn ADPAnti-sigma F factor / 0.677
3dge ADPSensor histidine kinase / 0.673
5cno ANPEpidermal growth factor receptor 2.7.10.1 0.673
3ork AGSSerine/threonine protein kinase / 0.672
1z59 ADPType 2 DNA topoisomerase 6 subunit B / 0.670
4m69 ANPReceptor-interacting serine/threonine-protein kinase 3 2.7.11.1 0.670
1l0o ADPAnti-sigma F factor / 0.669
2zdy ADP[Pyruvate dehydrogenase (acetyl-transferring)] kinase isozyme 4, mitochondrial 2.7.11.2 0.669
1i58 ADPChemotaxis protein CheA 2.7.13.3 0.668
3gie ACPSensor histidine kinase DesK 2.7.13.3 0.668
4xcl AGSHeat shock cognate 90 kDa protein / 0.668
3v2u ATPProtein GAL3 / 0.666
4df8 0L4DNA polymerase I, thermostable 2.7.7.7 0.665
1yt0 ADPEndoplasmin / 0.664
1ei1 ANPDNA gyrase subunit B / 0.663
3wnz ADPAlanine--anticapsin ligase / 0.663
3n0z 3ATAdenylate cyclase 2 / 0.662
1euy QSIGlutamine--tRNA ligase 6.1.1.18 0.660
3s3t ATPUniversal stress protein / 0.660
4p5a FADFlavin-dependent thymidylate synthase / 0.660
1h7u AGSMismatch repair endonuclease PMS2 3.1 0.659
5ce3 ADPProtein kinase YopO / 0.658
1s16 ANPDNA topoisomerase 4 subunit B / 0.657
4xcj ADPHeat shock cognate 90 kDa protein / 0.657
1o29 FADFlavin-dependent thymidylate synthase 2.1.1.148 0.656
4fvr ATPTyrosine-protein kinase JAK2 / 0.655
5eso TDP2-succinyl-5-enolpyruvyl-6-hydroxy-3-cyclohexene-1-carboxylate synthase / 0.655
2qaj AP5Adenylate kinase / 0.654
4fl3 ANPTyrosine-protein kinase SYK 2.7.10.2 0.653
3zkd ANPDNA gyrase subunit B / 0.652
4xw4 ANPcAMP-dependent protein kinase catalytic subunit alpha 2.7.11.11 0.652
2ior ADPChaperone protein HtpG / 0.650