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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
2pcaSAHDiphthine synthase

Complex with similar cavities

PDB ID HET Uniprot Name EC Number Cavity
Similarity		 Align
2pcaSAHDiphthine synthase/1.000
2p9dSAHDiphthine synthase/0.892
2eh4SAHDiphthine synthase/0.867
2owgSAHDiphthine synthase/0.856
2huvSAHDiphthine synthase/0.831
2huqSAHDiphthine synthase/0.806
1wngSAHDiphthine synthase/0.800
2el0SAHDiphthine synthase/0.791
2dv3SAHDiphthine synthase/0.790
2dxxSAHDiphthine synthase/0.790
2pchSAHDiphthine synthase/0.766
2e4nSAHDiphthine synthase/0.753
2e07SAHDiphthine synthase/0.745
2e8qSAHDiphthine synthase/0.742
2dshSAHDiphthine synthase/0.740
2ed5SAHDiphthine synthase/0.735
2pb5SAHDiphthine synthase/0.734
2ejjSAHDiphthine synthase/0.729
2pckSAHDiphthine synthase/0.726
2dxwSAHDiphthine synthase/0.719
2z6rSAHDiphthine synthase/0.718
2dv4SAHDiphthine synthase/0.716
2e7rSAHDiphthine synthase/0.714
2e8rSAHDiphthine synthase/0.714
2huxSAHDiphthine synthase/0.712
2dv5SAHDiphthine synthase/0.711
2p5cSAHDiphthine synthase/0.710
2ek4SAHDiphthine synthase/0.705
2eldSAHDiphthine synthase/0.705
2ek3SAHDiphthine synthase/0.703
2p6iSAHDiphthine synthase/0.700
2pcgSAHDiphthine synthase/0.697
2el3SAHDiphthine synthase/0.691
2p5fSAHDiphthine synthase/0.688
2en5SAHDiphthine synthase/0.686
2dxvSAHDiphthine synthase/0.683
2e17SAHDiphthine synthase/0.680
2dv7SAHDiphthine synthase/0.677
2hr8SAHDiphthine synthase/0.671
2pb4SAHDiphthine synthase/0.671
2ek7SAHDiphthine synthase/0.670
2dsgSAHDiphthine synthase/0.669
2ed3SAHDiphthine synthase/0.666
2emrSAHDiphthine synthase/0.665
2pb6SAHDiphthine synthase/0.660
2eniSAHDiphthine synthase/0.659
2dsiSAHDiphthine synthase/0.658
2hutSAHDiphthine synthase/0.655
1vceSAHDiphthine synthase/0.652
2e15SAHDiphthine synthase/0.651
2e8sSAHDiphthine synthase/0.651
2ek2SAHDiphthine synthase/0.648
2pcmSAHDiphthine synthase/0.643
2eeqSAHDiphthine synthase/0.640
2ejkSAHDiphthine synthase/0.635
2owkSAHDiphthine synthase/0.630
2p2xSAHDiphthine synthase/0.628
2p6kSAHDiphthine synthase/0.628
2ekaSAHDiphthine synthase/0.623
2eleSAHDiphthine synthase/0.623
2eh2SAHDiphthine synthase/0.622
2eh5SAHDiphthine synthase/0.622
2owuSAHDiphthine synthase/0.622
2egsSAHDiphthine synthase/0.620
2egbSAHDiphthine synthase/0.617
2e08SAHDiphthine synthase/0.611
2eglSAHDiphthine synthase/0.609
2emuSAHDiphthine synthase/0.606
2pciSAHDiphthine synthase/0.603
2e16SAHDiphthine synthase/0.599
2p6dSAHDiphthine synthase/0.595
2ehlSAHDiphthine synthase/0.575
2p6lSAHDiphthine synthase/0.575
2owfSAHDiphthine synthase/0.570
2dekSAHDiphthine synthase/0.560
2e8hSAHDiphthine synthase/0.559
2owvSAHDiphthine synthase/0.557
2ejzSAHDiphthine synthase/0.550
1xe55FEPlasmepsin-23.4.23.390.467
1rneC60Renin3.4.23.150.460
3dy8IBMHigh affinity cGMP-specific 3',5'-cyclic phosphodiesterase 9A/0.458
1ra8FOLDihydrofolate reductase1.5.1.30.456
4ougLP5Peptidoglycan recognition protein 1/0.456
4bfxZVXPantothenate kinase2.7.1.330.455
4jnkZHKL-lactate dehydrogenase A chain1.1.1.270.455
1w6hTITPlasmepsin-23.4.23.390.451
2cf6NAPCinnamyl alcohol dehydrogenase 51.1.1.1950.451
3a3gDLZLumazine protein/0.450
4gcmNAPThioredoxin reductase1.8.1.90.450
2g8yNADHydroxycarboxylate dehydrogenase B/0.448
2hunNAD336aa long hypothetical dTDP-glucose 4,6-dehydratase/0.448
4nd3NADLactate dehydrogenase, adjacent gene encodes predicted malate dehydrogenase/0.448
1bdlIM1Gag-Pol polyprotein3.4.23.160.447
1xddAAYIntegrin alpha-L/0.447
1g1aNADdTDP-glucose 4,6-dehydratase/0.446
2ifaFMNUncharacterized protein/0.446
3jswJARHigh affinity cGMP-specific 3',5'-cyclic phosphodiesterase 9A/0.446
3uozFAD2-oxo-Delta(3)-4,5,5-trimethylcyclopentenylacetyl-CoA monooxygenase1.14.13.1600.446
4nbtNAD3-oxoacyl-[acyl-carrier-protein] reductase/0.446
1t2cNAIL-lactate dehydrogenase1.1.1.270.445
1xe65FPPlasmepsin-23.4.23.390.445
3tneRITCandidapepsin-13.4.23.240.445
3up5FAD2-oxo-Delta(3)-4,5,5-trimethylcyclopentenylacetyl-CoA monooxygenase1.14.13.1600.445
4i8zG08Gag-Pol polyprotein3.4.23.160.445
4trnNADEnoyl-[acyl-carrier-protein] reductase [NADH]1.3.1.90.445
2g1r3IGRenin3.4.23.150.444
2rhgIGPTryptophan synthase alpha chain/0.444
3b70NAPEnoyl reductase LovC10.444
3fwiCAMCamphor 5-monooxygenase1.14.15.10.444
1bil0IURenin3.4.23.150.443
1t86CAMCamphor 5-monooxygenase1.14.15.10.443
1x1cSAHC-20 methyltransferase/0.443
3up4FAD2-oxo-Delta(3)-4,5,5-trimethylcyclopentenylacetyl-CoA monooxygenase1.14.13.1600.442
4bfzZVZPantothenate kinase2.7.1.330.442
4i1iNADMalate dehydrogenase/0.442
1rd7FOLDihydrofolate reductase1.5.1.30.441
2b8l5HABeta-secretase 13.4.23.460.441
2e0nSAHPrecorrin-2 C20-methyltransferase/0.441
2hfuMEVMevalonate kinase/0.441
4eudCOASuccinyl-CoA:acetate CoA-transferase/0.441
1a9zUPGUDP-glucose 4-epimerase5.1.3.20.440
1f20FADNitric oxide synthase, brain1.14.13.390.440
1pjcNADAlanine dehydrogenase/0.440
3mjrAC2Deoxycytidine kinase2.7.1.740.440
3phjDHKShikimate dehydrogenase (NADP(+))/0.440
3te5NAI5'-AMP-activated protein kinase subunit gamma/0.440
4nd4NADLactate dehydrogenase, adjacent gene encodes predicted malate dehydrogenase/0.440