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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
1l9kSAHGenome polyprotein2.7.7.48

Complex with similar cavities

PDB ID HET Uniprot Name EC Number Cavity
Similarity		 Align
1l9kSAHGenome polyprotein2.7.7.481.000
2p1dSAHGenome polyprotein2.7.7.480.700
1r6aSAHGenome polyprotein2.7.7.480.592
2p3qSAHGenome polyprotein/0.586
2pxaSAHGenome polyprotein2.7.7.480.585
4ctjSAMGenome polyprotein/0.579
5jjrSAHGenome polyprotein/0.562
3eluSAMMethyltransferase/0.559
3eldSFGMethyltransferase/0.550
3p8zSAHGenome polyprotein2.1.1.560.550
3p97SAMGenome polyprotein2.1.1.560.545
2px2SAHGenome polyprotein2.7.7.480.543
5jjsSAHGenome polyprotein/0.541
3elySAHMethyltransferase/0.534
5dtoSAHGenome polyprotein/0.528
3evcSAHGenome polyprotein2.1.1.560.524
3evbSAHGenome polyprotein2.1.1.560.522
5cuqNSCGenome polyprotein/0.521
2px5SAHGenome polyprotein2.7.7.480.516
3evaSAHGenome polyprotein2.1.1.560.513
4k6mSAHGenome polyprotein/0.501
2he5NDPAldo-keto reductase family 1 member C211.1.10.492
1ykdCMPAdenylate cyclase/0.487
3p8z36AGenome polyprotein2.1.1.560.480
3apfBMWPhosphatidylinositol 4,5-bisphosphate 3-kinase catalytic subunit gamma isoform2.7.1.1530.477
4anx534Phosphatidylinositol 4,5-bisphosphate 3-kinase catalytic subunit gamma isoform2.7.1.1530.475
1s3uTQDDihydrofolate reductase1.5.1.30.472
3cwkREACellular retinoic acid-binding protein 2/0.472
2chz093Phosphatidylinositol 4,5-bisphosphate 3-kinase catalytic subunit gamma isoform2.7.1.1530.469
2xckMH43-phosphoinositide-dependent protein kinase 12.7.11.10.469
1rx8FOLDihydrofolate reductase1.5.1.30.468
4fjyFJYPhosphatidylinositol 4,5-bisphosphate 3-kinase catalytic subunit gamma isoform2.7.1.1530.468
1cbqRE9Cellular retinoic acid-binding protein 2/0.465
2w9hTOPDihydrofolate reductase1.5.1.30.465
3u9eCOALmo1369 protein/0.463
2vbdV10Isopenicillin N synthase1.21.3.10.462
1hb1OCVIsopenicillin N synthase1.21.3.10.461
1qyw5SDEstradiol 17-beta-dehydrogenase 11.1.1.620.460
2chx090Phosphatidylinositol 4,5-bisphosphate 3-kinase catalytic subunit gamma isoform2.7.1.1530.460
2jlaTPP2-succinyl-5-enolpyruvyl-6-hydroxy-3-cyclohexene-1-carboxylate synthase/0.460
4g1wG1WMitogen-activated protein kinase 82.7.11.240.460
1wc6TATAdenylate cyclase/0.459
2oxtSAMGenome polyprotein/0.459
1hb3SCVIsopenicillin N synthase1.21.3.10.458
4xj43ATCyclic GMP-AMP synthase/0.458
5adhAPRAlcohol dehydrogenase E chain1.1.1.10.458
1oc1ASVIsopenicillin N synthase1.21.3.10.456
1pd9CO4Dihydrofolate reductase1.5.1.30.456
2aqhNAIEnoyl-[acyl-carrier-protein] reductase [NADH]1.3.1.90.456
2c31TZDOxalyl-CoA decarboxylase4.1.1.80.456
2yx6ADPUncharacterized protein/0.456
2wouZZFTGF-beta receptor type-12.7.11.300.455
2csnCKICasein kinase I homolog 12.7.11.10.454
3zkuHCVIsopenicillin N synthase1.21.3.10.454
4c3f7KWTyrosine-protein kinase Lck2.7.10.20.454
1cbsREACellular retinoic acid-binding protein 2/0.453
2y60M8FIsopenicillin N synthase1.21.3.10.453
2qo5CHDFatty acid-binding protein 10-A, liver basic/0.452
3v1s0LHStrictosidine synthase4.3.3.20.452
4bfvZVVPantothenate kinase2.7.1.330.452
3nj0PYVAbscisic acid receptor PYL2/0.451
4kne1CYDihydrofolate reductase1.5.1.30.451
2zbaZBATrichothecene 3-O-acetyltransferase/0.450
4bbxLKFcAMP and cAMP-inhibited cGMP 3',5'-cyclic phosphodiesterase 10A3.1.4.170.450
4ocpADPN-acetylhexosamine 1-kinase2.7.1.1620.450
2fy4COACholine O-acetyltransferase2.3.1.60.449
4jrnANPRhoptry kinase family protein/0.449
2aq8NAIEnoyl-[acyl-carrier-protein] reductase [NADH]1.3.1.90.448
2w6nOA2Biotin carboxylase6.3.4.140.448
3drcMTXDihydrofolate reductase1.5.1.30.448
4mv8ACPBiotin carboxylase6.3.4.140.448
1e90MYCPhosphatidylinositol 4,5-bisphosphate 3-kinase catalytic subunit gamma isoform2.7.1.1530.447
1qjfACSIsopenicillin N synthase1.21.3.10.447
2e9n76ASerine/threonine-protein kinase Chk12.7.11.10.447
3g5sFADMethylenetetrahydrofolate--tRNA-(uracil-5-)-methyltransferase TrmFO/0.447
2jb4A14Isopenicillin N synthase1.21.3.10.446
3eej53RUncharacterized protein/0.446
4g1y0VOVitamin D3 receptor A/0.446
4hkfACOAlpha-tubulin N-acetyltransferase 1/0.446
1mvsDTMDihydrofolate reductase1.5.1.30.445
1qpjSTUTyrosine-protein kinase Lck2.7.10.20.445
3eyhIZATyrosine-protein kinase JAK1/0.445
4dpdDHFBifunctional dihydrofolate reductase-thymidylate synthase/0.445
2hb7O1CVitamin D3 receptor/0.444
2vbpVB1Isopenicillin N synthase1.21.3.10.444
2wnsOMPUridine 5'-monophosphate synthase2.4.2.100.444
4anwO92Phosphatidylinositol 4,5-bisphosphate 3-kinase catalytic subunit gamma isoform2.7.1.1530.444
4ie6UN9Alpha-ketoglutarate-dependent dioxygenase FTO/0.444
1tehNADAlcohol dehydrogenase class-31.1.1.10.443
3ansS38Bifunctional epoxide hydrolase 23.3.2.100.443
3uvp048Mitogen-activated protein kinase 14/0.443
2fziDH3Dihydrofolate reductase1.5.1.30.442
2gr1FADFerredoxin reductase/0.442
2v2zADP4-diphosphocytidyl-2-C-methyl-D-erythritol kinase/0.442
2v4lABJPhosphatidylinositol 4,5-bisphosphate 3-kinase catalytic subunit gamma isoform2.7.1.1530.442
2ddoATPPyridoxine/pyridoxal/pyridoxamine kinase/0.441
2ii6C5PAlpha-2,3/2,6-sialyltransferase/sialidase/0.441
2wo7ASVIsopenicillin N synthase1.21.3.10.441
4anv751Phosphatidylinositol 4,5-bisphosphate 3-kinase catalytic subunit gamma isoform2.7.1.1530.441
4f1sF1SPhosphatidylinositol 4,5-bisphosphate 3-kinase catalytic subunit gamma isoform2.7.1.1530.441
4iqlFMNEnoyl-(Acyl-carrier-protein) reductase II/0.441
4ocvANPAminoglycoside phosphotransferase/0.441
4x5gFOLDihydrofolate reductase1.5.1.30.441
1ai9NDPDihydrofolate reductase1.5.1.30.440
1l8qADPChromosomal replication initiator protein DnaA/0.440
1txiTX5Vitamin D3 receptor/0.440
2hasC3OVitamin D3 receptor/0.440
2vcmM11Isopenicillin N synthase1.21.3.10.440
3a7jADPSerine/threonine-protein kinase 242.7.11.10.440
4fgg0U5Dihydrofolate reductase1.5.1.30.440
4iteTEYVitamin D3 receptor/0.440
4n57ADPAPH(2'')-Id/0.440
4otpADPSerine/threonine-protein kinase RIO12.7.11.10.440
4qmlANPSerine/threonine-protein kinase 242.7.11.10.440