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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
2x3j ATP AcsD

Complex with similar interaction patterns:

PDB ID HET Uniprot Name EC Number Binding Mode
Similarity		 Align
2x3j ATPAcsD / 1.288
2w02 ATPAcsD / 0.983
2x0q ATPAlcaligin biosynthesis protein / 0.904
2phk ATPPhosphorylase b kinase gamma catalytic chain, skeletal muscle/heart isoform 2.7.11.19 0.697
4wb6 ATPcAMP-dependent protein kinase catalytic subunit alpha 2.7.11.11 0.692
3vx4 ATPPutative ABC transporter, ATP-binding protein ComA / 0.685
4mkf AP5Adenylate kinase / 0.684
1zio AP5Adenylate kinase / 0.683
4fi1 ATPCasein kinase II subunit alpha 2.7.11.1 0.677
4mwh ATPCasein kinase II subunit alpha 2.7.11.1 0.676
1a2b GSPTransforming protein RhoA / 0.675
4jsy GTPMetallophosphoesterase / 0.672
1ayl ATPPhosphoenolpyruvate carboxykinase (ATP) / 0.671
1xef ATPAlpha-hemolysin translocation ATP-binding protein HlyB / 0.671
4xjx ATPType I restriction enzyme EcoR124II R protein 3.1.21.3 0.670
2jlr ANPGenome polyprotein 3.4.21.91 0.669
4mit GTPRho-related protein racC / 0.668
3adc ANPL-seryl-tRNA(Sec) kinase 2.7.1.164 0.667
3th5 GNPRas-related C3 botulinum toxin substrate 1 / 0.667
3fjq ATPcAMP-dependent protein kinase catalytic subunit alpha 2.7.11.11 0.663
1zc3 GNPRas-related protein Ral-A / 0.660
4n57 ADPAPH(2'')-Id / 0.656
1ake AP5Adenylate kinase / 0.655
1cxz GSPTransforming protein RhoA / 0.654
4kln AGSTransitional endoplasmic reticulum ATPase 3.6.4.6 0.654
4ceg ADPAurora kinase A 2.7.11.1 0.653
2olr ATPPhosphoenolpyruvate carboxykinase (ATP) / 0.652
2gcp GSPRho-related GTP-binding protein RhoC / 0.651
4cei ANPATP-dependent helicase/deoxyribonuclease subunit B 3.1 0.650