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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
2ynhEURGag-Pol polyprotein2.7.7.49

Complex with similar cavities

PDB ID HET Uniprot Name EC Number Cavity
Similarity		 Align
2ynhEURGag-Pol polyprotein2.7.7.491.000
3dyaPZLGag-Pol polyprotein2.7.7.490.664
3t1a5MAGag-Pol polyprotein2.7.7.490.646
3c6uM22Gag-Pol polyprotein2.7.7.490.645
3c6tM14Gag-Pol polyprotein2.7.7.490.631
4h4m494Gag-Pol polyprotein2.7.7.490.631
3t195MAGag-Pol polyprotein2.7.7.490.630
3lakKR1Gag-Pol polyprotein2.7.7.490.626
3tamM06Gag-Pol polyprotein2.7.7.490.625
4h4o506Gag-Pol polyprotein2.7.7.490.621
3lalKRVGag-Pol polyprotein2.7.7.490.620
3e01PZ2Gag-Pol polyprotein2.7.7.490.619
2be2R22Gag-Pol polyprotein2.7.7.490.608
4mfb29TGag-Pol polyprotein2.7.7.490.602
3dokGWJPol protein/0.598
3drpR8EGag-Pol polyprotein2.7.7.490.586
2wonZZEGag-Pol polyprotein2.7.7.490.580
4rw6494Gag-Pol polyprotein2.7.7.490.579
4rw4494Gag-Pol polyprotein2.7.7.490.570
4lsl1YQGag-Pol polyprotein2.7.7.490.567
3drrR8EGag-Pol polyprotein2.7.7.490.557
1rt1MKCGag-Pol polyprotein2.7.7.490.551
2ynfWHUGag-Pol polyprotein2.7.7.490.550
3dmjGWEPol protein/0.542
2b5j3ACGag-Pol polyprotein2.7.7.490.540
3dlgGWEGag-Pol polyprotein2.7.7.490.527
3dleGFAGag-Pol polyprotein2.7.7.490.525
3dolGWIPol protein/0.521
1c1bGCAGag-Pol polyprotein2.7.7.490.508
1rtiHEFGag-Pol polyprotein2.7.7.490.494
3nbpJGZGag-Pol polyprotein2.7.7.490.492
1jlaTNKGag-Pol polyprotein2.7.7.490.487
1c1c612Gag-Pol polyprotein2.7.7.490.483
3irxUDRGag-Pol polyprotein2.7.7.490.482
3di6PDZGag-Pol polyprotein2.7.7.490.479
1zdwFLVPrenyltransferase/0.464
2jih097A disintegrin and metalloproteinase with thrombospondin motifs 13.4.240.464
4j6dTESCytochrome P450 monooxygenase/0.464
3qlhT27Gag-Pol polyprotein2.7.7.490.463
3wmxNADNAD dependent epimerase/dehydratase/0.463
3zhbNAPPutative dehydrogenase/0.460
2ykjYKJHeat shock protein HSP 90-alpha/0.459
4i8vBHFCytochrome P450 1A11.14.14.10.455
3vt7VDXVitamin D3 receptor/0.453
3a1l2CCCytochrome P450/0.452
4ia3BIVVitamin D3 receptor A/0.452
3tea4CO4-hydroxybenzoyl-CoA thioesterase3.1.2.230.451
3vt8YI3Vitamin D3 receptor/0.451
4kf1HT5Aryldialkylphosphatase3.1.8.10.449
1s1vTNKGag-Pol polyprotein2.7.7.490.448
2hcdBIVVitamin D3 receptor A/0.448
2yk2YJWHeat shock protein HSP 90-alpha/0.448
3vt65YIVitamin D3 receptor/0.448
2z3uCRRCytochrome P450/0.447
2yk2YJXHeat shock protein HSP 90-alpha/0.446
4iarERM5-hydroxytryptamine receptor 1B/0.446
3gphOIDCytochrome P450 2E11.14.130.445
1o6qR17Squalene--hopene cyclase4.2.1.1290.444
3i0sRT7Gag-Pol polyprotein2.7.7.490.444
4fhh0U3Vitamin D3 receptor A/0.444
7catNDPCatalase1.11.1.60.443
1og5SWFCytochrome P450 2C9/0.442
3vt5YI2Vitamin D3 receptor/0.442
4eiyZMAAdenosine receptor A2a/0.442
4iq71G9Mycocyclosin synthase1.14.21.90.441
3ozd4CTS-methyl-5'-thioadenosine phosphorylase/0.440
3zuxTCHTransporter/0.440
4awq592Heat shock protein HSP 90-alpha/0.440
5cwa0GAAnthranilate synthase component 14.1.3.270.440