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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
2ynfWHUGag-Pol polyprotein2.7.7.49

Complex with similar cavities

PDB ID HET Uniprot Name EC Number Cavity
Similarity		 Align
2ynfWHUGag-Pol polyprotein2.7.7.491.000
3drpR8EGag-Pol polyprotein2.7.7.490.608
4h4o506Gag-Pol polyprotein2.7.7.490.594
3t195MAGag-Pol polyprotein2.7.7.490.578
3tamM06Gag-Pol polyprotein2.7.7.490.568
3c6tM14Gag-Pol polyprotein2.7.7.490.566
2be2R22Gag-Pol polyprotein2.7.7.490.563
3dyaPZLGag-Pol polyprotein2.7.7.490.549
3lakKR1Gag-Pol polyprotein2.7.7.490.548
2b5j3ACGag-Pol polyprotein2.7.7.490.546
3drrR8EGag-Pol polyprotein2.7.7.490.543
4rw4494Gag-Pol polyprotein2.7.7.490.542
3dmjGWEPol protein/0.541
4mfb29TGag-Pol polyprotein2.7.7.490.538
3dokGWJPol protein/0.535
3e01PZ2Gag-Pol polyprotein2.7.7.490.533
3dlgGWEGag-Pol polyprotein2.7.7.490.526
2jleI15Reverse transcriptase/RNaseH/0.519
2ynhEURGag-Pol polyprotein2.7.7.490.512
1jlaTNKGag-Pol polyprotein2.7.7.490.498
3ffi3OBGag-Pol polyprotein2.7.7.490.486
3dolGWIPol protein/0.481
1rt2TNKGag-Pol polyprotein2.7.7.490.475
1rt1MKCGag-Pol polyprotein2.7.7.490.469
3lamKRPGag-Pol polyprotein2.7.7.490.465
1ia4TQ6Dihydrofolate reductase1.5.1.30.462
3fcoIIGCorticosteroid 11-beta-dehydrogenase isozyme 11.1.1.1460.458
1rtiHEFGag-Pol polyprotein2.7.7.490.455
3ctj320Hepatocyte growth factor receptor2.7.10.10.455
3vt65YIVitamin D3 receptor/0.452
2aqiNAIEnoyl-[acyl-carrier-protein] reductase [NADH]1.3.1.90.451
4q0a4OAVitamin D3 receptor A/0.451
2wufKEM4,5:9,10-diseco-3-hydroxy-5,9,17-trioxoandrosta-1(10),2-diene-4-oate hydrolase3.7.1.170.450
3lanKBTGag-Pol polyprotein2.7.7.490.449
3rk708ZCyclin-dependent kinase 22.7.11.220.449
4nb6444Nuclear receptor ROR-gamma/0.449
1fmjRTLRetinol dehydratase/0.447
4nkvAERSteroid 17-alpha-hydroxylase/17,20 lyase/0.447
2hc4VDXVitamin D3 receptor A/0.446
3pgqGY3Acetyl-CoA carboxylase/0.445
4bgePYWEnoyl-[acyl-carrier-protein] reductase [NADH]1.3.1.90.445
4i7fNVEGag-Pol polyprotein2.7.7.490.445
1oirHDYCyclin-dependent kinase 22.7.11.220.444
3kjrNAPBifunctional dihydrofolate reductase-thymidylate synthase/0.444
4i2q1BTGag-Pol polyprotein2.7.7.490.444
3nbpJGZGag-Pol polyprotein2.7.7.490.443
1bvrNADEnoyl-[acyl-carrier-protein] reductase [NADH]1.3.1.90.442
1k6cMK1Gag-Pol polyprotein3.4.23.160.441
3h0sB38Acetyl-CoA carboxylase/0.441
1qiqACCIsopenicillin N synthase1.21.3.10.440
1v9aSAHUncharacterized protein/0.440
2o4rVD5Vitamin D3 receptor/0.440
3iqfE4MF420-dependent methylenetetrahydromethanopterin dehydrogenase1.5.98.10.440
3w0aDS5Vitamin D3 receptor/0.440