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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
2pchSAHDiphthine synthase

Complex with similar cavities

PDB ID HET Uniprot Name EC Number Cavity
Similarity		 Align
2pchSAHDiphthine synthase/1.000
2dv3SAHDiphthine synthase/0.825
2e7rSAHDiphthine synthase/0.816
2dxxSAHDiphthine synthase/0.799
2pcgSAHDiphthine synthase/0.791
2huxSAHDiphthine synthase/0.785
2pcaSAHDiphthine synthase/0.778
2e8qSAHDiphthine synthase/0.777
2eldSAHDiphthine synthase/0.773
2en5SAHDiphthine synthase/0.767
2el0SAHDiphthine synthase/0.756
1wngSAHDiphthine synthase/0.753
2owgSAHDiphthine synthase/0.753
2p9dSAHDiphthine synthase/0.753
2el3SAHDiphthine synthase/0.743
2eh4SAHDiphthine synthase/0.738
2dxwSAHDiphthine synthase/0.734
2pckSAHDiphthine synthase/0.733
2ek4SAHDiphthine synthase/0.732
2p5cSAHDiphthine synthase/0.732
2pb4SAHDiphthine synthase/0.724
2pb6SAHDiphthine synthase/0.723
2ek7SAHDiphthine synthase/0.718
2dv7SAHDiphthine synthase/0.717
2dxvSAHDiphthine synthase/0.716
2egbSAHDiphthine synthase/0.713
2ejkSAHDiphthine synthase/0.713
2huvSAHDiphthine synthase/0.704
2e4nSAHDiphthine synthase/0.698
2eglSAHDiphthine synthase/0.698
2p6iSAHDiphthine synthase/0.691
2p5fSAHDiphthine synthase/0.690
2e16SAHDiphthine synthase/0.683
2ed5SAHDiphthine synthase/0.682
2eleSAHDiphthine synthase/0.682
2emrSAHDiphthine synthase/0.678
2egsSAHDiphthine synthase/0.676
2dsgSAHDiphthine synthase/0.674
2ekaSAHDiphthine synthase/0.670
2dv4SAHDiphthine synthase/0.669
2dv5SAHDiphthine synthase/0.667
2e8sSAHDiphthine synthase/0.667
2huqSAHDiphthine synthase/0.665
2dshSAHDiphthine synthase/0.663
2pcmSAHDiphthine synthase/0.663
2e8rSAHDiphthine synthase/0.662
2ejjSAHDiphthine synthase/0.660
2eh5SAHDiphthine synthase/0.659
1vceSAHDiphthine synthase/0.658
2eniSAHDiphthine synthase/0.658
2owvSAHDiphthine synthase/0.656
2p6dSAHDiphthine synthase/0.655
2emuSAHDiphthine synthase/0.651
2p2xSAHDiphthine synthase/0.651
2e07SAHDiphthine synthase/0.649
2ehlSAHDiphthine synthase/0.649
2hr8SAHDiphthine synthase/0.646
2p6lSAHDiphthine synthase/0.646
2dsiSAHDiphthine synthase/0.629
2z6rSAHDiphthine synthase/0.629
2e08SAHDiphthine synthase/0.626
2pciSAHDiphthine synthase/0.625
2e8hSAHDiphthine synthase/0.619
2dekSAHDiphthine synthase/0.618
2ek2SAHDiphthine synthase/0.617
2ek3SAHDiphthine synthase/0.616
2eh2SAHDiphthine synthase/0.615
2hutSAHDiphthine synthase/0.600
2owkSAHDiphthine synthase/0.596
2owuSAHDiphthine synthase/0.590
2e17SAHDiphthine synthase/0.574
2eeqSAHDiphthine synthase/0.567
2ed3SAHDiphthine synthase/0.561
2owfSAHDiphthine synthase/0.557
2e15SAHDiphthine synthase/0.554
2ejzSAHDiphthine synthase/0.536
2cf6NAPCinnamyl alcohol dehydrogenase 51.1.1.1950.481
2a94AP0L-lactate dehydrogenase1.1.1.270.477
2gjlFMNNitronate monooxygenase1.13.12.160.468
3l9hEMQKinesin-like protein KIF11/0.468
1f8fNADBenzyl alcohol dehydrogenase/0.467
4iqlFMNEnoyl-(Acyl-carrier-protein) reductase II/0.466
1xe55FEPlasmepsin-23.4.23.390.465
3otwCOAPhosphopantetheine adenylyltransferase/0.465
3tneRITCandidapepsin-13.4.23.240.464
1iolESTEstradiol 17-beta-dehydrogenase 11.1.1.620.463
2gjnFMNNitronate monooxygenase1.13.12.160.460
2znnS44Peroxisome proliferator-activated receptor alpha/0.458
3up5FAD2-oxo-Delta(3)-4,5,5-trimethylcyclopentenylacetyl-CoA monooxygenase1.14.13.1600.458
4nd3NADLactate dehydrogenase, adjacent gene encodes predicted malate dehydrogenase/0.458
3ik6HCZGlutamate receptor 2/0.457
2ahrNAPPyrroline-5-carboxylate reductase/0.456
3vdqNAD3-hydroxybutyrate dehydrogenase/0.455
3w6hAZMCarbonic anhydrase 14.2.1.10.455
4jnkZHKL-lactate dehydrogenase A chain1.1.1.270.455
2g8yNADHydroxycarboxylate dehydrogenase B/0.454
2p6kSAHDiphthine synthase/0.454
2hk9NAPShikimate dehydrogenase (NADP(+))/0.453
3upkUD1UDP-N-acetylglucosamine 1-carboxyvinyltransferase/0.453
3ijoB4DGlutamate receptor 2/0.452
2xhd7T9Glutamate receptor 2/0.451
1re7FOLDihydrofolate reductase1.5.1.30.450
1tqf32PBeta-secretase 13.4.23.460.450
2ztvNADD(-)-3-hydroxybutyrate dehydrogenase/0.448
1rd7FOLDihydrofolate reductase1.5.1.30.447
2g1o2IGRenin3.4.23.150.447
3wv7ADPHmd co-occurring protein HcgE/0.447
5adhAPRAlcohol dehydrogenase E chain1.1.1.10.447
1kkq471Peroxisome proliferator-activated receptor alpha/0.446
3a3gDLZLumazine protein/0.446
4pleCPSNuclear receptor subfamily 5 group A member 2/0.446
5a4kFADNAD(P)H dehydrogenase [quinone] 11.6.5.20.446
4bftZVTPantothenate kinase2.7.1.330.445
1ps9MDE2,4-dienoyl-CoA reductase1.3.1.340.444
1t86CAMCamphor 5-monooxygenase1.14.15.10.444
2fznFADBifunctional protein PutA1.5.5.20.444
4bfzZVZPantothenate kinase2.7.1.330.444
4r21STRCytochrome P450 family 17 polypeptide 2/0.444
4z61ILE_THR_GLN_TYS_TYSPhytosulfokine receptor 12.7.11.10.444
2feuCAMCamphor 5-monooxygenase1.14.15.10.443
2he5NDPAldo-keto reductase family 1 member C211.1.10.443
1dhrNADDihydropteridine reductase1.5.1.340.442
1dirNADDihydropteridine reductase1.5.1.340.442
1pd9CO4Dihydrofolate reductase1.5.1.30.442
1zeoC01Peroxisome proliferator-activated receptor gamma/0.442
2rhgIGPTryptophan synthase alpha chain/0.442
3r9uFADThioredoxin reductase/0.442
3tfuPL8Adenosylmethionine-8-amino-7-oxononanoate aminotransferase2.6.1.620.442
4eplJAIJasmonic acid-amido synthetase JAR16.3.20.442
1bim0QBRenin3.4.23.150.441
1bwlFMNNADPH dehydrogenase 11.6.99.10.441
1lbcCYZGlutamate receptor 2/0.441
1nooCAHCamphor 5-monooxygenase1.14.15.10.441
1ra8FOLDihydrofolate reductase1.5.1.30.441
1xe65FPPlasmepsin-23.4.23.390.441
2c29NAPDihydroflavonol 4-reductase/0.441
2p5uNADUDP-glucose 4-epimerase/0.441
4ewn0VRImidazole glycerol phosphate synthase subunit HisF4.1.30.441
4ougLP5Peptidoglycan recognition protein 1/0.441
1ddrMTXDihydrofolate reductase1.5.1.30.440
1xddAAYIntegrin alpha-L/0.440
3pvcFADtRNA 5-methylaminomethyl-2-thiouridine biosynthesis bifunctional protein MnmC/0.440
3qgf46FGenome polyprotein2.7.7.480.440
3uozFAD2-oxo-Delta(3)-4,5,5-trimethylcyclopentenylacetyl-CoA monooxygenase1.14.13.1600.440
4a83DXCMajor pollen allergen Bet v 1-A/0.440
4i1iNADMalate dehydrogenase/0.440
5a0yCOMMethyl-coenzyme M reductase I subunit alpha2.8.4.10.440
5a0yCOMMethyl-coenzyme M reductase I subunit beta2.8.4.10.440