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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
3nhuM42Ribosyldihydronicotinamide dehydrogenase [quinone]

Complex with similar cavities

PDB ID HET Uniprot Name EC Number Cavity
Similarity		 Align
3nhuM42Ribosyldihydronicotinamide dehydrogenase [quinone]/1.000
3nhpHGZRibosyldihydronicotinamide dehydrogenase [quinone]/0.659
3uxe465Ribosyldihydronicotinamide dehydrogenase [quinone]/0.642
3nhjA2ZRibosyldihydronicotinamide dehydrogenase [quinone]/0.632
3nfrEWQRibosyldihydronicotinamide dehydrogenase [quinone]/0.631
4gqiM49Ribosyldihydronicotinamide dehydrogenase [quinone]/0.627
3nhwZXZRibosyldihydronicotinamide dehydrogenase [quinone]/0.625
3uxhUXHRibosyldihydronicotinamide dehydrogenase [quinone]/0.625
1sg0STLRibosyldihydronicotinamide dehydrogenase [quinone]/0.621
3o73O73Ribosyldihydronicotinamide dehydrogenase [quinone]/0.615
3nhfVVVRibosyldihydronicotinamide dehydrogenase [quinone]/0.614
3nhyA7BRibosyldihydronicotinamide dehydrogenase [quinone]/0.613
2bzsCB1Ribosyldihydronicotinamide dehydrogenase [quinone]/0.603
3ox34X4Ribosyldihydronicotinamide dehydrogenase [quinone]/0.599
2qmzLDPRibosyldihydronicotinamide dehydrogenase [quinone]/0.588
4gr9372Ribosyldihydronicotinamide dehydrogenase [quinone]/0.588
3ox1695Ribosyldihydronicotinamide dehydrogenase [quinone]/0.584
4qofFMNRibosyldihydronicotinamide dehydrogenase [quinone]/0.575
3nhkVAPRibosyldihydronicotinamide dehydrogenase [quinone]/0.574
3owxXRARibosyldihydronicotinamide dehydrogenase [quinone]/0.574
4fgj1PQRibosyldihydronicotinamide dehydrogenase [quinone]/0.574
4zvmDM2Ribosyldihydronicotinamide dehydrogenase [quinone]/0.572
1xi2CB1Ribosyldihydronicotinamide dehydrogenase [quinone]/0.565
4zvnFADRibosyldihydronicotinamide dehydrogenase [quinone]/0.559
3ox279XRibosyldihydronicotinamide dehydrogenase [quinone]/0.558
4qoeFADRibosyldihydronicotinamide dehydrogenase [quinone]/0.555
3g5mFADRibosyldihydronicotinamide dehydrogenase [quinone]/0.540
3nhlYTRRibosyldihydronicotinamide dehydrogenase [quinone]/0.537
1zx1CB1Ribosyldihydronicotinamide dehydrogenase [quinone]/0.534
4zvlFADRibosyldihydronicotinamide dehydrogenase [quinone]/0.532
4qohSTLRibosyldihydronicotinamide dehydrogenase [quinone]/0.512
3nhrRZWRibosyldihydronicotinamide dehydrogenase [quinone]/0.486
3gamMXXRibosyldihydronicotinamide dehydrogenase [quinone]/0.485
2qmyFADRibosyldihydronicotinamide dehydrogenase [quinone]/0.478
3nxvD2FDihydrofolate reductase1.5.1.30.475
4ib4ERM5-hydroxytryptamine receptor 2B/0.470
4jib1L6cGMP-dependent 3',5'-cyclic phosphodiesterase3.1.4.170.465
5d7q4I5NAD-dependent protein deacetylase sirtuin-23.5.10.462
1qxlFR8Adenosine deaminase3.5.4.40.458
4pkl1GHUncharacterized protein/0.458
1g3mPCQEstrogen sulfotransferase2.8.2.40.456
1sjwNGVNogalonic acid methyl ester cyclase/0.456
2fs4PZ1Renin3.4.23.150.456
3adaNADSubunit alpha of sarocosine oxidase/0.456
4aojV4ZHigh affinity nerve growth factor receptor2.7.10.10.456
4b144XBGlycylpeptide N-tetradecanoyltransferase/0.456
4bbhYBNGlycylpeptide N-tetradecanoyltransferase/0.456
1r2jFADFkbI/0.455
3arvSAUChitinase A/0.454
3t8vBTJM1 family aminopeptidase3.4.110.452
1v7aFRCAdenosine deaminase3.5.4.40.451
1q4t4CO4-hydroxybenzoyl-CoA thioesterase3.1.2.230.450
4dymIYZActivin receptor type-12.7.11.300.450
4e0u0MVCyclic dipeptide N-prenyltransferase/0.450
1yc2NADNAD-dependent protein deacylase 2/0.449
2bktRPFRenin3.4.23.150.448
3bgqVX2Serine/threonine-protein kinase pim-12.7.11.10.448
3vsoEK1Peroxisome proliferator-activated receptor gamma/0.448
3vt8YI3Vitamin D3 receptor/0.448
1vrqFONSubunit alpha of sarocosine oxidase/0.447
4yryFADGlutamate synthase, beta subunit/0.447
5d7pOCZNAD-dependent protein deacetylase sirtuin-23.5.10.447
1umlFR4Adenosine deaminase3.5.4.40.446
3b7dCNIGlutamate receptor 2/0.446
1rdt570Peroxisome proliferator-activated receptor gamma/0.445
1y60H4M5,6,7,8-tetrahydromethanopterin hydro-lyase4.2.1.1470.445
2op18PCEnoyl-ACP reductase/0.445
3sgx0FWDitrans,polycis-undecaprenyl-diphosphate synthase ((2E,6E)-farnesyl-diphosphate specific)2.5.1.310.445
3v94WYQPhosphodiesterase/0.445
5dp2NAPCurF/0.445
1kbqFADNAD(P)H dehydrogenase [quinone] 11.6.5.20.444
1o5rFR9Adenosine deaminase3.5.4.40.444
1q1rFADPutidaredoxin reductase1.18.1.50.444
2i9pNAD3-hydroxyisobutyrate dehydrogenase, mitochondrial1.1.1.310.444
3b9lAZZSerum albumin/0.444
1q4u4CA4-hydroxybenzoyl-CoA thioesterase3.1.2.230.443
4lm5Q17Serine/threonine-protein kinase pim-12.7.11.10.443
1vkgCRIHistone deacetylase 83.5.1.980.442
1x2hLPALipoate-protein ligase A6.3.1.200.442
1bvrNADEnoyl-[acyl-carrier-protein] reductase [NADH]1.3.1.90.441
1disBDMDihydrofolate reductase1.5.1.30.441
3l9nL9NcAMP-dependent protein kinase catalytic subunit alpha2.7.11.110.441
4iarERM5-hydroxytryptamine receptor 1B/0.441
4jvmXDIEstrogen sulfotransferase2.8.2.40.441
1tkzH16Gag-Pol polyprotein2.7.7.490.440
4bgg844Activin receptor type-12.7.11.300.440