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sc-PDB

An Annotated Database of Druggable Binding Sites from the Protein DataBank

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Distribution of Binding site similarity measured by Shaper
You can zoom onto the graph by using the mouse to make a selection

Binding Sites are compared using Shaper.
For more information, please see the following publication: Desaphy J. et al. Comparison and Druggability Prediction of protein-Ligand Binding sites from pharmacophore-annotated cavity shapes J. Chem. Inf. Model., 2012, 52(8), pp2287-2299
Binding Sites are considered as similar when the similarity value is greater than 0.44

Reference Protein Data Bank Entry :
PDB IDHETUniprot NameEC Number
4qbhAP5Adenylate kinase

Complex with similar binding sites

PDB ID HET Uniprot Name EC Number Binding Site
Similarity		 Align
4qbhAP5Adenylate kinase/1.000
4qbiAP5Adenylate kinase/0.654
3dl0AP5Adenylate kinase/0.631
3dkvAP5Adenylate kinase/0.608
2osbAP5Adenylate kinase/0.586
4jloADPAdenylate kinase/0.574
1p3jAP5Adenylate kinase/0.573
4jl5ADPAdenylate kinase/0.570
2oo7AP5Adenylate kinase/0.565
4jl6ADPAdenylate kinase/0.558
3hpqAP5Adenylate kinase/0.547
1akeAP5Adenylate kinase/0.545
4mkfAP5Adenylate kinase/0.537
4nu0AP5Adenylate kinase/0.533
4cf7ADPAdenylate kinase/0.532
4ikeADPAdenylate kinase/0.527
1ankANPAdenylate kinase/0.522
4w5jAP5Adenylate kinase/0.520
2eckADPAdenylate kinase/0.517
4x8oAP5Adenylate kinase/0.512
4jkyADPAdenylate kinase/0.508
1zioAP5Adenylate kinase/0.505
4jldADPAdenylate kinase/0.492
4x8lAP5Adenylate kinase/0.491
3tlxADPAdenylate kinase 2/0.486
2rgxAP5Adenylate kinase/0.473
1rywEPUUDP-N-acetylglucosamine 1-carboxyvinyltransferase/0.463
4jshH4BNitric oxide synthase, brain1.14.13.390.462
3swqEPUUDP-N-acetylglucosamine 1-carboxyvinyltransferase/0.460
2akyAP5Adenylate kinase/0.453
2rl1UD1UDP-N-acetylglucosamine 1-carboxyvinyltransferase/0.453
1qiqACCIsopenicillin N synthase1.21.3.10.452
5aglH4BNitric oxide synthase, brain1.14.13.390.452
3kr6UD1UDP-N-acetylglucosamine 1-carboxyvinyltransferase/0.451
3vcyUD1UDP-N-acetylglucosamine 1-carboxyvinyltransferase/0.451
2qoqANPEphrin type-A receptor 32.7.10.10.450
3qpvADP6-phosphofructo-2-kinase/fructose-2,6-bisphosphatase 32.7.1.1050.449
1k2uH4BNitric oxide synthase, brain1.14.13.390.448
2yvwEPUUDP-N-acetylglucosamine 1-carboxyvinyltransferase/0.448
1oc1ASVIsopenicillin N synthase1.21.3.10.446
2cbsR13Cellular retinoic acid-binding protein 2/0.446
3s79ASDAromatase1.14.14.140.446
1dxyNADD-2-hydroxyisocaproate dehydrogenase1.1.10.444
2v3aFADRubredoxin-NAD(+) reductase1.18.1.10.444
3v4tUD1UDP-N-acetylglucosamine 1-carboxyvinyltransferase/0.444
2bunFADAppA protein/0.441