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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
1c1c612Gag-Pol polyprotein2.7.7.49

Complex with similar cavities

PDB ID HET Uniprot Name EC Number Cavity
Similarity		 Align
1c1c612Gag-Pol polyprotein2.7.7.491.000
1c1bGCAGag-Pol polyprotein2.7.7.490.713
3dmjGWEPol protein/0.579
1rt1MKCGag-Pol polyprotein2.7.7.490.573
3dokGWJPol protein/0.554
1rt7UC4Gag-Pol polyprotein2.7.7.490.552
3bgrT27Gag-Pol polyprotein2.7.7.490.536
3dlgGWEGag-Pol polyprotein2.7.7.490.528
3ffi3OBGag-Pol polyprotein2.7.7.490.527
4rw6494Gag-Pol polyprotein2.7.7.490.525
1rt4UC1Gag-Pol polyprotein2.7.7.490.521
1jlcFTCGag-Pol polyprotein2.7.7.490.520
4i2pG73Gag-Pol polyprotein2.7.7.490.520
1tl3H20Gag-Pol polyprotein2.7.7.490.519
4lsl1YQGag-Pol polyprotein2.7.7.490.519
1tl1H18Gag-Pol polyprotein2.7.7.490.517
2wonZZEGag-Pol polyprotein2.7.7.490.517
3dleGFAGag-Pol polyprotein2.7.7.490.516
3lalKRVGag-Pol polyprotein2.7.7.490.516
2be2R22Gag-Pol polyprotein2.7.7.490.515
3t1a5MAGag-Pol polyprotein2.7.7.490.513
3dyaPZLGag-Pol polyprotein2.7.7.490.509
4rw4494Gag-Pol polyprotein2.7.7.490.509
2zd1T27Gag-Pol polyprotein2.7.7.490.507
3c6tM14Gag-Pol polyprotein2.7.7.490.505
3c6uM22Gag-Pol polyprotein2.7.7.490.505
1tktH12Gag-Pol polyprotein2.7.7.490.504
4h4o506Gag-Pol polyprotein2.7.7.490.503
3lakKR1Gag-Pol polyprotein2.7.7.490.502
4id5T27Gag-Pol polyprotein2.7.7.490.502
4h4m494Gag-Pol polyprotein2.7.7.490.499
3qlhT27Gag-Pol polyprotein2.7.7.490.492
1tkzH16Gag-Pol polyprotein2.7.7.490.488
3drrR8EGag-Pol polyprotein2.7.7.490.488
1jlaTNKGag-Pol polyprotein2.7.7.490.486
1rt5UC2Gag-Pol polyprotein2.7.7.490.485
4g1qT27Gag-Pol polyprotein2.7.7.490.480
4mfb29TGag-Pol polyprotein2.7.7.490.480
3m8p65BGag-Pol polyprotein2.7.7.490.478
3t195MAGag-Pol polyprotein2.7.7.490.478
3dolGWIPol protein/0.477
3otqMZLBifunctional epoxide hydrolase 23.3.2.100.477
4ifvT27Gag-Pol polyprotein2.7.7.490.477
1hpzAAPGag-Pol polyprotein2.7.7.490.476
4ky404JBifunctional dihydrofolate reductase-thymidylate synthase1.5.1.30.476
1s1tUC1Gag-Pol polyprotein2.7.7.490.474
2ynhEURGag-Pol polyprotein2.7.7.490.472
2z3uCRRCytochrome P450/0.471
4bcrWY1Peroxisome proliferator-activated receptor alpha/0.471
5d7pOCZNAD-dependent protein deacetylase sirtuin-23.5.10.471
3wmxNADNAD dependent epimerase/dehydratase/0.469
2w9sTOPDihydrofolate reductase type 1 from Tn40031.5.1.30.467
1rdt570Peroxisome proliferator-activated receptor gamma/0.466
1zw9H64ATP-dependent molecular chaperone HSP82/0.466
1rtiHEFGag-Pol polyprotein2.7.7.490.465
4imoPWZProstaglandin-H2 D-isomerase5.3.99.20.465
2b5j3ACGag-Pol polyprotein2.7.7.490.464
1s1vTNKGag-Pol polyprotein2.7.7.490.463
4j6dTESCytochrome P450 monooxygenase/0.462
1uy8PU5Heat shock protein HSP 90-alpha/0.461
2gvcFADThiol-specific monooxygenase1.14.130.460
3i0sRT7Gag-Pol polyprotein2.7.7.490.460
2fwzH71Heat shock protein HSP 90-alpha/0.459
4ge40KEKynurenine/alpha-aminoadipate aminotransferase, mitochondrial2.6.1.390.459
4j03FVSBifunctional epoxide hydrolase 23.1.3.760.459
4nky3QZSteroid 17-alpha-hydroxylase/17,20 lyase/0.459
5ai5BSUBifunctional epoxide hydrolase 23.1.3.760.458
5cpbNADEnoyl-[acyl-carrier-protein] reductase [NADH]1.3.1.90.458
2wueKEK4,5:9,10-diseco-3-hydroxy-5,9,17-trioxoandrosta-1(10),2-diene-4-oate hydrolase3.7.1.170.457
3inwJZBHeat shock protein HSP 90-alpha/0.457
1blzACVIsopenicillin N synthase1.21.3.10.456
3zhbNAPPutative dehydrogenase/0.455
4b8uIBK3-hydroxydecanoyl-[acyl-carrier-protein] dehydratase4.2.1.590.455
4l8u9AZSerum albumin/0.455
2hwrDRDPeroxisome proliferator-activated receptor gamma/0.454
2ynfWHUGag-Pol polyprotein2.7.7.490.454
4gdy0X1Kynurenine/alpha-aminoadipate aminotransferase, mitochondrial2.6.1.390.454
4kfbT27Gag-Pol polyprotein2.7.7.490.454
1ml6GBXGlutathione S-transferase A22.5.1.180.453
3w0aDS5Vitamin D3 receptor/0.453
3qm4PN0Cytochrome P450 2D6/0.452
4i8vBHFCytochrome P450 1A11.14.14.10.452
1f4fTP3Thymidylate synthase/0.451
2g2hP16Tyrosine-protein kinase ABL12.7.10.20.451
2pr2DG1Enoyl-[acyl-carrier-protein] reductase [NADH]1.3.1.90.451
1y2c3DEcAMP-specific 3',5'-cyclic phosphodiesterase 4D3.1.4.530.450
2fm5M99cAMP-specific 3',5'-cyclic phosphodiesterase 4D3.1.4.530.450
2gjnFMNNitronate monooxygenase1.13.12.160.450
2jn3JN3Fatty acid-binding protein, liver/0.450
3drpR8EGag-Pol polyprotein2.7.7.490.450
1fm9570Peroxisome proliferator-activated receptor gamma/0.449
1zidZIDEnoyl-[acyl-carrier-protein] reductase [NADH]1.3.1.90.449
2ban357Gag-Pol polyprotein2.7.7.490.449
2jedLG8Protein kinase C theta type2.7.11.130.449
2qo4CHDFatty acid-binding protein 10-A, liver basic/0.449
3tamM06Gag-Pol polyprotein2.7.7.490.449
3uicNADEnoyl-[acyl-carrier-protein] reductase [NADH]/0.449
3vsoEK1Peroxisome proliferator-activated receptor gamma/0.449
1enyNADEnoyl-[acyl-carrier-protein] reductase [NADH]1.3.1.90.448
2uxoTACHTH-type transcriptional regulator TtgR/0.448
2wufKEM4,5:9,10-diseco-3-hydroxy-5,9,17-trioxoandrosta-1(10),2-diene-4-oate hydrolase3.7.1.170.448
2yee2ECHeat shock protein HSP 90-alpha/0.448
3t37FADPyridoxine 4-oxidase/0.448
1kbqFADNAD(P)H dehydrogenase [quinone] 11.6.5.20.447
1s1wUC1Gag-Pol polyprotein2.7.7.490.447
1u2gAPRNAD(P) transhydrogenase subunit alpha part 11.6.1.20.447
3pm0BHFCytochrome P450 1B1/0.447
3w2cN15Aurora kinase A2.7.11.10.447
3zep1NXTyrosine-protein kinase JAK32.7.10.20.447
4z3dNDPCarbonyl reductase [NADPH] 11.1.1.1840.447
2ay84TBAromatic-amino-acid aminotransferase2.6.1.570.446
2hpsCTZCa2+-triggered coelenterazine-binding protein 1/0.446
3gwfFADCyclohexanone monooxygenase/0.446
3nr4PYVAbscisic acid receptor PYL2/0.446
3o0iP54Heat shock protein HSP 90-alpha/0.446
3vt65YIVitamin D3 receptor/0.446
4xuhSFIPeroxisome proliferator-activated receptor gamma/0.446
5dp2NAPCurF/0.446
1uykPUXHeat shock protein HSP 90-alpha/0.445
1zg32HIIsoflavone 4'-O-methyltransferase/0.445
2hj3FADFAD-linked sulfhydryl oxidase ERV1/0.445
3dr1C5DVitamin D3 receptor A/0.445
4klrCHDFerrochelatase, mitochondrial4.99.1.10.445
4yal2AMNADPH--cytochrome P450 reductase/0.445
5jy1NADPutative short-chain dehydrogenase/reductase/0.445
1fmjRTLRetinol dehydratase/0.444
2rkiTT1Gag-Pol polyprotein2.7.7.490.444
3g49NAPCorticosteroid 11-beta-dehydrogenase isozyme 11.1.1.1460.444
4iq71G9Mycocyclosin synthase1.14.21.90.444
4yx6FMNOmega-3 polyunsaturated fatty acid synthase subunit PfaD/0.444
1y60H4M5,6,7,8-tetrahydromethanopterin hydro-lyase4.2.1.1470.443
2hw2RFPRifampin ADP-ribosyl transferase/0.443
2q8sL92Peroxisome proliferator-activated receptor gamma/0.443
3k4s0MOcAMP-specific 3',5'-cyclic phosphodiesterase 4D3.1.4.530.443
3pqbVGPPutative oxidoreductase/0.443
4gh5NADShort-chain dehydrogenase/reductase SDR/0.443
1iyzNDPProbable quinone oxidoreductase/0.442
2e7rSAHDiphthine synthase/0.442
3hcrCHDFerrochelatase, mitochondrial4.99.1.10.442
4awq592Heat shock protein HSP 90-alpha/0.442
4lxjLANLanosterol 14-alpha demethylase1.14.13.700.442
1e1nFADNADPH:adrenodoxin oxidoreductase, mitochondrial1.18.1.60.441
2a8xFADDihydrolipoyl dehydrogenase1.8.1.40.441
2h55DZ8Heat shock protein HSP 90-alpha/0.441
3adaNADSubunit alpha of sarocosine oxidase/0.441
2bu9HFVIsopenicillin N synthase1.21.3.10.440
2q59240Peroxisome proliferator-activated receptor gamma/0.440
2qo9ANPEphrin type-A receptor 32.7.10.10.440
3ey9TDPPyruvate dehydrogenase [ubiquinone]1.2.5.10.440
3h1vTK1Glucokinase2.7.1.20.440
4ktkKTKCytochrome P450/0.440
5ab7MLCNonspecific lipid-transfer protein, putative/0.440