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sc-PDB

An Annotated Database of Druggable Binding Sites from the Protein DataBank

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Distribution of Binding site similarity measured by Shaper
You can zoom onto the graph by using the mouse to make a selection

Binding Sites 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
Binding Sites are considered as similar when the similarity value is greater than 0.44

Reference Protein Data Bank Entry :
PDB IDHETUniprot NameEC Number
4qohSTLRibosyldihydronicotinamide dehydrogenase [quinone]

Complex with similar binding sites

PDB ID HET Uniprot Name EC Number Binding Site
Similarity		 Align
4qohSTLRibosyldihydronicotinamide dehydrogenase [quinone]/1.000
3nhpHGZRibosyldihydronicotinamide dehydrogenase [quinone]/0.665
3ox34X4Ribosyldihydronicotinamide dehydrogenase [quinone]/0.657
3ox279XRibosyldihydronicotinamide dehydrogenase [quinone]/0.643
3owxXRARibosyldihydronicotinamide dehydrogenase [quinone]/0.642
3nhfVVVRibosyldihydronicotinamide dehydrogenase [quinone]/0.636
3nhlYTRRibosyldihydronicotinamide dehydrogenase [quinone]/0.634
4zvmDM2Ribosyldihydronicotinamide dehydrogenase [quinone]/0.634
1xi2CB1Ribosyldihydronicotinamide dehydrogenase [quinone]/0.633
4fgj1PQRibosyldihydronicotinamide dehydrogenase [quinone]/0.632
1sg0STLRibosyldihydronicotinamide dehydrogenase [quinone]/0.629
3ox1695Ribosyldihydronicotinamide dehydrogenase [quinone]/0.628
3uxe465Ribosyldihydronicotinamide dehydrogenase [quinone]/0.625
1zx1CB1Ribosyldihydronicotinamide dehydrogenase [quinone]/0.624
3nhkVAPRibosyldihydronicotinamide dehydrogenase [quinone]/0.622
2bzsCB1Ribosyldihydronicotinamide dehydrogenase [quinone]/0.615
2qmzLDPRibosyldihydronicotinamide dehydrogenase [quinone]/0.615
3nhrRZWRibosyldihydronicotinamide dehydrogenase [quinone]/0.615
4gr9372Ribosyldihydronicotinamide dehydrogenase [quinone]/0.600
4gqiM49Ribosyldihydronicotinamide dehydrogenase [quinone]/0.595
3o73O73Ribosyldihydronicotinamide dehydrogenase [quinone]/0.593
3nhyA7BRibosyldihydronicotinamide dehydrogenase [quinone]/0.592
3nhjA2ZRibosyldihydronicotinamide dehydrogenase [quinone]/0.587
3nfrEWQRibosyldihydronicotinamide dehydrogenase [quinone]/0.585
3uxhUXHRibosyldihydronicotinamide dehydrogenase [quinone]/0.580
3gamMXXRibosyldihydronicotinamide dehydrogenase [quinone]/0.551
3nhwZXZRibosyldihydronicotinamide dehydrogenase [quinone]/0.546
3g5mFADRibosyldihydronicotinamide dehydrogenase [quinone]/0.529
3nhuM42Ribosyldihydronicotinamide dehydrogenase [quinone]/0.520
4zvnFADRibosyldihydronicotinamide dehydrogenase [quinone]/0.519
3kslSZHProtein farnesyltransferase subunit beta2.5.1.580.488
1ja1FADNADPH--cytochrome P450 reductase/0.486
1pqc444Oxysterols receptor LXR-beta/0.484
1i5rHYCEstradiol 17-beta-dehydrogenase 11.1.1.620.482
1re0AFBADP-ribosylation factor 1/0.481
1re0AFBARF guanine-nucleotide exchange factor 1/0.481
2ojg19AMitogen-activated protein kinase 12.7.11.240.477
2yneYNEGlycylpeptide N-tetradecanoyltransferase/0.477
3kegMREFMN-dependent NADH-azoreductase 1/0.476
1pq944BOxysterols receptor LXR-beta/0.474
2vt4P32Beta-1 adrenergic receptor/0.473
2ycwCAUBeta-1 adrenergic receptor/0.472
1amoFADNADPH--cytochrome P450 reductase/0.471
3busSAHDemethylrebeccamycin-D-glucose O-methyltransferase/0.469
4s1iPLPPyridoxal kinase, putative/0.469
1s9dAFBCytohesin-2/0.468
1s9dAFBADP-ribosylation factor 1/0.468
4eb4D16Thymidylate synthase2.1.1.450.468
2yczI32Beta-1 adrenergic receptor/0.468
4bfxZVXPantothenate kinase2.7.1.330.467
3fktSIIBeta-secretase 13.4.23.460.466
4n4v2GYTankyrase-12.4.2.300.466
4ymkST9Acyl-CoA desaturase 1/0.466
2bf4FADNADPH--cytochrome P450 reductase/0.464
1r8qAFBCytohesin-2/0.463
1r8qAFBADP-ribosylation factor 1/0.463
4b13X25Glycylpeptide N-tetradecanoyltransferase/0.463
4b144XBGlycylpeptide N-tetradecanoyltransferase/0.461
2aclL05Oxysterols receptor LXR-alpha/0.460
4a959MTGlycylpeptide N-tetradecanoyltransferase/0.460
4bj9UHBTankyrase-22.4.2.300.460
4h6pFMNChromate reductase/0.460
4amiG90Beta-1 adrenergic receptor/0.460
2f98NGVAklanonic acid methyl ester cyclase AcmA5.5.1.230.459
3bv7NAP3-oxo-5-beta-steroid 4-dehydrogenase/0.459
3v0p4GWHisto-blood group ABO system transferase/0.459
4bfyZVYPantothenate kinase2.7.1.330.459
4hs4FMNChromate reductase/0.459
3qe2FADNADPH--cytochrome P450 reductase/0.458
4biiPYWEnoyl-[acyl-carrier-protein] reductase [NADH]1.3.1.90.458
2idkC2FGlycine N-methyltransferase2.1.1.200.457
3fpkFADFerredoxin-NADP reductase/0.457
1galFADGlucose oxidase1.1.3.40.456
1mvsDTMDihydrofolate reductase1.5.1.30.456
4iarERM5-hydroxytryptamine receptor 1B/0.456
3byzH11Corticosteroid 11-beta-dehydrogenase isozyme 11.1.1.1460.455
5kgpACOPredicted acetyltransferase/0.455
1drfFOLDihydrofolate reductase1.5.1.30.454
1kbo340NAD(P)H dehydrogenase [quinone] 11.6.5.20.454
3ha3SAHHydroxymycolate synthase MmaA42.1.10.454
3ihgVAKAklavinone 12-hydroxylase RdmE/0.454
4ez8DHFThymidylate synthase2.1.1.450.454
1xuoLA1Integrin alpha-L/0.453
4a2zVIQGlycylpeptide N-tetradecanoyltransferase/0.453
4bfuZVUPantothenate kinase2.7.1.330.453
1fapRAPPeptidyl-prolyl cis-trans isomerase FKBP1A5.2.1.80.452
1fapRAPSerine/threonine-protein kinase mTOR2.7.11.10.452
1jqdSAHHistamine N-methyltransferase2.1.1.80.452
3zc3FADFerredoxin--NADP reductase1.18.1.20.452
4nieNBHNuclear receptor ROR-gamma/0.452
4pl0ANPMicrocin-J25 export ATP-binding/permease protein McjD/0.452
3qe2FMNNADPH--cytochrome P450 reductase/0.451
3v0o4GWHisto-blood group ABO system transferase/0.451
2ycxP32Beta-1 adrenergic receptor/0.451
1gg5E09NAD(P)H dehydrogenase [quinone] 11.6.5.20.450
1hb3SCVIsopenicillin N synthase1.21.3.10.450
2zxgS23Aminopeptidase N3.4.11.20.450
4a322CDGlycylpeptide N-tetradecanoyltransferase/0.450
4oztP1AEcdysone receptor, putative/0.450
1jtvTESEstradiol 17-beta-dehydrogenase 11.1.1.620.449
2aouCQAHistamine N-methyltransferase2.1.1.80.449
3o9lLPNRenin3.4.23.150.449
4cdmFO1Deoxyribodipyrimidine photolyase/0.449
1bk0ACVIsopenicillin N synthase1.21.3.10.448
3af1GDPPantothenate kinase2.7.1.330.448
3br3ETHTH-type transcriptional regulator QacR/0.448
4jvmXDIEstrogen sulfotransferase2.8.2.40.448
5a4vQUEGlutathione S-transferase F22.5.1.180.448
2ycyP32Beta-1 adrenergic receptor/0.448
1digL37C-1-tetrahydrofolate synthase, cytoplasmic1.5.1.50.447
2ed3SAHDiphthine synthase/0.447
3u9fCLMChloramphenicol acetyltransferase2.3.1.280.447
3vo2FADFerredoxin--NADP reductase/0.447
4c43FADFerredoxin--NADP reductase1.18.1.20.447
4l7g1W0Beta-secretase 13.4.23.460.447
5d5aCAUBeta-2 adrenergic receptor/0.447
2nmtMIMGlycylpeptide N-tetradecanoyltransferase2.3.1.970.446
3l0lHC3Nuclear receptor ROR-gamma/0.446
3rsv3RSBeta-secretase 13.4.23.460.446
4bfvZVVPantothenate kinase2.7.1.330.446
4ewo996Beta-secretase 13.4.23.460.446
4j0t6T9Beta-secretase 13.4.23.460.446
4qoeFADRibosyldihydronicotinamide dehydrogenase [quinone]/0.446
4xbfFADLysine-specific histone demethylase 1A10.446
1f20FADNitric oxide synthase, brain1.14.13.390.445
1lnmDTXBilin-binding protein/0.445
1vrqFONSubunit alpha of sarocosine oxidase/0.445
2bu9HFVIsopenicillin N synthase1.21.3.10.445
2getCOKPantothenate kinase2.7.1.330.445
2wjoQUDBeta-secretase 13.4.23.460.445
3fhxPLPPyridoxal kinase2.7.1.350.445
3rtnRTNBeta-secretase 13.4.23.460.445
4bfwZVWPantothenate kinase2.7.1.330.445
4q0kGA3Phytohormone-binding protein/0.445
1p8dCO1Oxysterols receptor LXR-beta/0.444
1yhjR6CPyridoxal kinase2.7.1.350.444
2ddoATPPyridoxine/pyridoxal/pyridoxamine kinase/0.444
3arpDEQChitinase A/0.444
3w6uNAP6-phosphogluconate dehydrogenase, NAD-binding protein/0.444
3d4sTIMBeta-2 adrenergic receptor/0.444
1nsgRADPeptidyl-prolyl cis-trans isomerase FKBP1A5.2.1.80.443
1nsgRADSerine/threonine-protein kinase mTOR2.7.11.10.443
2a59LMZ6,7-dimethyl-8-ribityllumazine synthase2.5.1.780.443
2bpoFADNADPH--cytochrome P450 reductase/0.443
2e9aB28Ditrans,polycis-undecaprenyl-diphosphate synthase ((2E,6E)-farnesyl-diphosphate specific)2.5.1.310.443
2zwaSAHtRNA wybutosine-synthesizing protein 42.1.1.2900.443
3nn6HNK6-hydroxy-L-nicotine oxidase/0.443
3udk095Beta-secretase 13.4.23.460.443
3zbrNAP2',3'-cyclic-nucleotide 3'-phosphodiesterase3.1.4.370.443
1xu9CPSCorticosteroid 11-beta-dehydrogenase isozyme 11.1.1.1460.442
3mhpFADFerredoxin--NADP reductase, leaf isozyme, chloroplastic1.18.1.20.442
4amjCVDBeta-1 adrenergic receptor/0.442
4ea2RWZDehydrosqualene synthase/0.442
4qofFMNRibosyldihydronicotinamide dehydrogenase [quinone]/0.442
4uugPXGBranched-chain amino acid aminotransferase, putative/0.442
1qiqACCIsopenicillin N synthase1.21.3.10.441
1s3uTQDDihydrofolate reductase1.5.1.30.441
2ejzSAHDiphthine synthase/0.441
2fs4PZ1Renin3.4.23.150.441
2vbpVB1Isopenicillin N synthase1.21.3.10.441
3f6rFMNFlavodoxin/0.441
3ojxFMNNADPH--cytochrome P450 reductase/0.441
3rviRVIBeta-secretase 13.4.23.460.441
3udj092Beta-secretase 13.4.23.460.441
3ufl508Beta-secretase 13.4.23.460.441
5a4wQCTGlutathione S-transferase F22.5.1.180.441
5fd8A5APutative carboxypeptidase yocD/0.441
1hvyD16Thymidylate synthase2.1.1.450.440
2cleF6FTryptophan synthase alpha chain/0.440
2geuCOKPantothenate kinase2.7.1.330.440
2vbdV10Isopenicillin N synthase1.21.3.10.440
3ha7B32Hydroxymycolate synthase MmaA42.1.10.440
3qfcFADNADPH--cytochrome P450 reductase/0.440
4eqrCOACoenzyme A disulfide reductase/0.440
4g95OAGDihydrofolate reductase1.5.1.30.440
4yfy0FXVioF/0.440