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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
3vdqNAD3-hydroxybutyrate dehydrogenase

Complex with similar binding sites

PDB ID HET Uniprot Name EC Number Binding Site
Similarity		 Align
3vdqNAD3-hydroxybutyrate dehydrogenase/1.000
3w8eNAD3-hydroxybutyrate dehydrogenase/0.668
2ztlNADD(-)-3-hydroxybutyrate dehydrogenase/0.631
2ztmNADD(-)-3-hydroxybutyrate dehydrogenase/0.610
3w8dNAD3-hydroxybutyrate dehydrogenase/0.592
2ztvNADD(-)-3-hydroxybutyrate dehydrogenase/0.590
2q2vNADBeta-D-hydroxybutyrate dehydrogenase/0.564
3w8fNAD3-hydroxybutyrate dehydrogenase/0.557
2q2qNADBeta-D-hydroxybutyrate dehydrogenase/0.547
1g6kNADGlucose 1-dehydrogenase1.1.1.470.541
3ai2NDPNADPH-sorbose reductase/0.534
1ae1NAPTropinone reductase 1/0.531
3toxNAPPutative oxidoreductase/0.527
1rwbNADGlucose 1-dehydrogenase1.1.1.470.526
4j7uNAPSepiapterin reductase1.1.1.1530.523
4j7xNAPSepiapterin reductase1.1.1.1530.522
1gcoNADGlucose 1-dehydrogenase1.1.1.470.517
4rf2NAPNADPH dependent R-specific alcohol dehydrogenase/0.514
2dteNAIGlucose 1-dehydrogenase related protein/0.513
4yaiNAIC alpha-dehydrogenase/0.512
2wdzNADGalactitol dehydrogenase/0.509
1x7hNDPPutative ketoacyl reductase1.3.10.508
3p19NDPPutative blue fluorescent protein/0.508
5idwNAPShort-chain dehydrogenase/reductase SDR/0.508
1x7gNAPPutative ketoacyl reductase1.3.10.507
4bmvNAPShort-chain dehydrogenase/0.505
1geeNADGlucose 1-dehydrogenase1.1.1.470.504
4yagNAIC alpha-dehydrogenase/0.504
1w4zNAPPutative ketoacyl reductase1.3.10.503
3a28NADL-2,3-butanediol dehydrogenase1.1.1.760.503
5jlaNADPutative short-chain dehydrogenase/reductase/0.503
1pr9NAPL-xylulose reductase1.1.1.100.500
1ipeNDPTropinone reductase 21.1.1.2360.499
4b79NADProbable short-chain dehydrogenase/0.494
4is3NAD3alpha-hydroxy bile acid-CoA-ester 3-dehydrogenase 21.17.98.10.494
3gy0NAPNAD(P)-dependent oxidoreductase/0.493
1e6wNAD3-hydroxyacyl-CoA dehydrogenase type-21.1.1.350.492
1edoNAP3-oxoacyl-[acyl-carrier-protein] reductase 1, chloroplastic1.1.1.1000.491
1n5dNDPCarbonyl reductase [NADPH] 1/0.491
3d3wNAPL-xylulose reductase1.1.1.100.490
3iahNAPPutative oxoacyl-(Acyl carrier protein) reductase/0.490
1vl8NAPOxidoreductase, short chain dehydrogenase/reductase family/0.489
4fw8NAI3-oxoacyl-(Acyl-carrier-protein) reductase/0.489
3bhiNAPCarbonyl reductase [NADPH] 11.1.1.1840.487
4bmsNAPAlclohol dehydrogenase/short-chain dehydrogenase/0.487
2gdzNAD15-hydroxyprostaglandin dehydrogenase [NAD(+)]1.1.1.1410.486
3qrwNDPPutative ketoacyl reductase1.3.10.486
4nbuNAI3-oxoacyl-(Acyl-carrier-protein) reductase/0.486
1gegNADDiacetyl reductase [(S)-acetoin forming]1.1.1.3040.485
1oaaNAPSepiapterin reductase1.1.1.1530.485
4dc1NDPPutative ketoacyl reductase1.3.10.485
1xkqNDPUncharacterized protein/0.484
2ekpNAD2-deoxy-D-gluconate 3-dehydrogenase/0.484
1xg5NAPDehydrogenase/reductase SDR family member 11/0.482
3lqfNADGalactitol dehydrogenase/0.482
3s55NADPutative short-chain dehydrogenase/reductase/0.482
4iqgNAPShort-chain dehydrogenase/reductase SDR/0.482
1snyNAPLD36273p/0.481
3ijrNADOxidoreductase, short chain dehydrogenase/reductase family/0.480
4fj1NAP17beta-hydroxysteroid dehydrogenase/0.480
1iy8NADLevodione reductase/0.479
4hwkNAPSepiapterin reductase1.1.1.1530.479
1wntNAPL-xylulose reductase1.1.1.100.477
2jahNDPClavaldehyde dehydrogenase/0.477
2yutNAPPutative short-chain oxidoreductase/0.477
2zatNAPDehydrogenase/reductase SDR family member 41.1.1.1840.476
1e3sNAD3-hydroxyacyl-CoA dehydrogenase type-21.1.1.350.473
2bd0NAPSepiapterin reductase/0.472
2wsbNADGalactitol dehydrogenase/0.472
2wyvNADEnoyl-[acyl-carrier-protein] reductase [NADH]/0.472
2d1yNADOxidoreductase, short-chain dehydrogenase/reductase family/0.471
4nbtNAD3-oxoacyl-[acyl-carrier-protein] reductase/0.471
2ewmNAD(S)-1-Phenylethanol dehydrogenase1.1.1.3110.469
3qwfNAP17beta-hydroxysteroid dehydrogenase/0.469
3wdsNADNADH-dependent quinuclidinone reductase/0.468
3uceNDPDehydrogenase/0.467
5js6NAD17-beta-hydroxysteroid dehydrogenase 141.1.10.467
3ai3NDPNADPH-sorbose reductase/0.466
4o0lNDPNADPH-dependent 3-quinuclidinone reductase/0.465
3nugNADPyridoxal 4-dehydrogenase1.1.1.1070.464
4c7kNAPCorticosteroid 11-beta-dehydrogenase isozyme 11.1.1.1460.464
4gh5NADShort-chain dehydrogenase/reductase SDR/0.464
1g0nNDPTetrahydroxynaphthalene reductase1.1.1.2520.463
4qecNAPElxO/0.463
3bmoNAPPteridine reductase/0.462
3o4rNAPDehydrogenase/reductase SDR family member 41.1.1.1840.462
3sjuNDPKeto reductase/0.462
4fn4NADShort chain dehydrogenase/0.461
4i5eNAPAlclohol dehydrogenase/short-chain dehydrogenase/0.460
1fduNAPEstradiol 17-beta-dehydrogenase 11.1.1.620.459
4nbwNADShort-chain dehydrogenase/reductase SDR/0.459
3l77NJPShort-chain alcohol dehydrogenase/0.458
4cqlNADEstradiol 17-beta-dehydrogenase 81.1.1.620.458
2ydxNAPMethionine adenosyltransferase 2 subunit beta/0.457
4esoNAPPutative oxidoreductase/0.456
1cydNDPCarbonyl reductase [NADPH] 21.1.1.1840.454
3ndrNADPyridoxal 4-dehydrogenase1.1.1.1070.454
4bkqNAIEnoyl-[acyl-carrier-protein] reductase [NADH]/0.454
4oxyNADEnoyl-[acyl-carrier-protein] reductase [NADH]1.3.1.90.453
3tn7NJPShort-chain alcohol dehydrogenase/0.452
4dmmNAP3-oxoacyl-[acyl-carrier-protein] reductase/0.452
4z3dNDPCarbonyl reductase [NADPH] 11.1.1.1840.452
4fj2NAP17beta-hydroxysteroid dehydrogenase/0.451
5jsfNAD17-beta-hydroxysteroid dehydrogenase 141.1.10.451
4fj0NAP17beta-hydroxysteroid dehydrogenase/0.448
2b37NADEnoyl-[acyl-carrier-protein] reductase [NADH]1.3.1.90.447
2dknNAI3-alpha-hydroxysteroid dehydrogenase/0.447
2p5uNADUDP-glucose 4-epimerase/0.447
1e3wNAD3-hydroxyacyl-CoA dehydrogenase type-21.1.1.350.446
1zemNADXylitol dehydrogenase/0.446
4fc7NAPPeroxisomal 2,4-dienoyl-CoA reductase1.3.1.340.446
4o1mNADEnoyl-acyl carrier reductase/0.446
5jydNADShort chain dehydrogenase/0.444
5lc1NADL-threonine 3-dehydrogenase/0.443
4jjiNADAlcohol dehydrogenase class-3/0.442
3gw9VNILanosterol 14-alpha-demethylase/0.441
3u4cNDPNADPH-dependent reductase BacG/0.440