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sc-PDB

An Annotated Database of Druggable Binding Sites from the Protein DataBank

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Distribution of Cavity similarities measured by Shaper
You can zoom onto the graph by using the mouse to make a selection

Cavities 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

Reference Protein Data Bank Entry :
PDB ID HET Uniprot Name EC Number
2g82NADGlyceraldehyde-3-phosphate dehydrogenase

Complex with similar cavities

PDB ID HET Uniprot Name EC Number Cavity
Similarity		 Align
2g82NADGlyceraldehyde-3-phosphate dehydrogenase/1.000
3cmcNADGlyceraldehyde-3-phosphate dehydrogenase/0.630
1nptNADGlyceraldehyde-3-phosphate dehydrogenase/0.624
2vyvNADGlyceraldehyde-3-phosphate dehydrogenase A/0.612
1gd1NADGlyceraldehyde-3-phosphate dehydrogenase/0.611
2vynNADGlyceraldehyde-3-phosphate dehydrogenase A/0.611
3hjaNADGlyceraldehyde-3-phosphate dehydrogenase/0.606
1nqoNADGlyceraldehyde-3-phosphate dehydrogenase/0.590
1cerNADGlyceraldehyde-3-phosphate dehydrogenase/0.586
1gypNADGlyceraldehyde-3-phosphate dehydrogenase, glycosomal1.2.1.120.584
4k9dNADGlyceraldehyde-3-phosphate dehydrogenase1.2.1.120.581
1nqaNADGlyceraldehyde-3-phosphate dehydrogenase/0.579
1nq5NADGlyceraldehyde-3-phosphate dehydrogenase/0.576
3e5rNADGlyceraldehyde-3-phosphate dehydrogenase 1, cytosolic1.2.1.120.575
3dmtNADGlyceraldehyde-3-phosphate dehydrogenase, glycosomal1.2.1.120.574
3dbvNADGlyceraldehyde-3-phosphate dehydrogenase/0.573
4p8rNADGlyceraldehyde-3-phosphate dehydrogenase/0.566
3ksdNADGlyceraldehyde-3-phosphate dehydrogenase 1/0.565
3lvfNADGlyceraldehyde-3-phosphate dehydrogenase 1/0.561
3cifNADGlyceraldehyde-3-phosphate dehydrogenase/0.560
1a7kNADGlyceraldehyde-3-phosphate dehydrogenase, glycosomal1.2.1.120.559
1ml3NADGlyceraldehyde-3-phosphate dehydrogenase, glycosomal1.2.1.120.559
4o59NADGlyceraldehyde-3-phosphate dehydrogenase1.2.1.120.551
3cpsNADGlyceraldehyde-3-phosphate dehydrogenase/0.548
3l4sNADGlyceraldehyde-3-phosphate dehydrogenase 1/0.547
3docNADGlyceraldehyde-3-phosphate dehydrogenase/0.540
1znqNADGlyceraldehyde-3-phosphate dehydrogenase1.2.1.120.532
1qxsNADGlyceraldehyde-3-phosphate dehydrogenase, glycosomal1.2.1.120.529
3k2bNADGlyceraldehyde-3-phosphate dehydrogenase GAPA1, chloroplastic1.2.1.130.526
3qv1NADGlyceraldehyde-3-phosphate dehydrogenase GAPA1, chloroplastic1.2.1.130.518
3b20NADGlyceraldehyde-3-phosphate dehydrogenase/0.515
3zdfNADGlyceraldehyde-3-phosphate dehydrogenase/0.511
1zemNADXylitol dehydrogenase/0.496
3qvxNADMyo-inositol-1-phosphate synthase (Ino1)/0.491
1u8fNADGlyceraldehyde-3-phosphate dehydrogenase1.2.1.120.488
3qw2NADMyo-inositol-1-phosphate synthase (Ino1)/0.487
4xq9NADHomospermidine synthase2.5.1.440.487
3qvtNAIMyo-inositol-1-phosphate synthase (Ino1)/0.482
1e6wNAD3-hydroxyacyl-CoA dehydrogenase type-21.1.1.350.478
1t2dNADL-lactate dehydrogenase1.1.1.270.477
4xqcNADHomospermidine synthase2.5.1.440.475
4fw8NAI3-oxoacyl-(Acyl-carrier-protein) reductase/0.471
1p1hNADInositol-3-phosphate synthase5.5.1.40.469
2pkrNDPGlyceraldehyde-3-phosphate dehydrogenase A, chloroplastic1.2.1.130.469
4tvbNADHomospermidine synthase2.5.1.440.469
4xrgNADHomospermidine synthase2.5.1.440.468
1la2NADInositol-3-phosphate synthase5.5.1.40.467
4nbtNAD3-oxoacyl-[acyl-carrier-protein] reductase/0.466
4nd2A3DLactate dehydrogenase, adjacent gene encodes predicted malate dehydrogenase/0.466
2oorNADNAD(P) transhydrogenase subunit alpha part 11.6.1.20.465
1c1dNAIPhenylalanine dehydrogenase/0.464
1e3wNAD3-hydroxyacyl-CoA dehydrogenase type-21.1.1.350.461
3ak4NADNADH-dependent quinuclidinone reductase/0.461
1dssNADGlyceraldehyde-3-phosphate dehydrogenase1.2.1.120.459
1ie3NADMalate dehydrogenase/0.458
3wmxNADNAD dependent epimerase/dehydratase/0.457
4ykgNADAlkyl hydroperoxide reductase subunit F1.8.10.456
4cr8NADN-acylmannosamine 1-dehydrogenase1.1.1.2330.454
4kb9G79Protease/0.454
5lc1NADL-threonine 3-dehydrogenase/0.454
1dhjMTXDihydrofolate reductase1.5.1.30.452
1p1iNADInositol-3-phosphate synthase5.5.1.40.452
2ewmNAD(S)-1-Phenylethanol dehydrogenase1.1.1.3110.452
2fn7NADLactate dehydrogenase, adjacent gene encodes predicted malate dehydrogenase/0.452
5adhAPRAlcohol dehydrogenase E chain1.1.1.10.452
4plpNADHomospermidine synthase2.5.1.440.451
1e3sNAD3-hydroxyacyl-CoA dehydrogenase type-21.1.1.350.450
2hsdNAD3-alpha-(or 20-beta)-hydroxysteroid dehydrogenase1.1.1.530.450
3idsNADGlyceraldehyde-3-phosphate dehydrogenase, glycosomal1.2.1.120.447
1vikBAYGag-Pol polyprotein/0.445
2d1yNADOxidoreductase, short-chain dehydrogenase/reductase family/0.445
4ajp88NL-lactate dehydrogenase A chain1.1.1.270.445
4nd4NADLactate dehydrogenase, adjacent gene encodes predicted malate dehydrogenase/0.445
1sowNADL-lactate dehydrogenase1.1.1.270.444
2dvmNAD439aa long hypothetical malate oxidoreductase (NAD) [malic enzyme]/0.444
2v13C40Renin3.4.23.150.444
1iy8NADLevodione reductase/0.443
2hjrAPRMalate dehydrogenase, adjacent gene encodes predicted lactate dehydrogenase/0.443
5bn3ADPV-type ATP synthase alpha chain/0.443
5bn3ADPNEQ263/0.443
1b3rNADAdenosylhomocysteinase3.3.1.10.441
1sbyNADAlcohol dehydrogenase1.1.1.10.441
5jscFADPutative acyl-CoA dehydrogenase/0.441
1g1aNADdTDP-glucose 4,6-dehydratase/0.440
1u7tTDT3-hydroxyacyl-CoA dehydrogenase type-21.1.1.350.440
1yt9OISGag-Pol polyprotein/0.440
2ebaFADPutative glutaryl-CoA dehydrogenase/0.440
2f4bEHAPeroxisome proliferator-activated receptor gamma/0.440
2nruT12Interleukin-1 receptor-associated kinase 42.7.11.10.440
2obyNAPQuinone oxidoreductase PIG310.440
2znq401Peroxisome proliferator-activated receptor delta/0.440
3aw9NADNAD-dependent epimerase/dehydratase/0.440
3pvzNADUDP-N-acetylglucosamine 4,6-dehydratase/0.440
4kl9NDPDihydrofolate reductase1.5.1.30.440