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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
1tl1H18Gag-Pol polyprotein2.7.7.49

Complex with similar cavities

PDB ID HET Uniprot Name EC Number Cavity
Similarity		 Align
1tl1H18Gag-Pol polyprotein2.7.7.491.000
1tktH12Gag-Pol polyprotein2.7.7.490.763
1tl3H20Gag-Pol polyprotein2.7.7.490.672
1rt4UC1Gag-Pol polyprotein2.7.7.490.668
1s1wUC1Gag-Pol polyprotein2.7.7.490.667
1tkzH16Gag-Pol polyprotein2.7.7.490.661
2opqHBQGag-Pol polyprotein2.7.7.490.654
1c1bGCAGag-Pol polyprotein2.7.7.490.625
1revTB9Gag-Pol polyprotein2.7.7.490.622
1vruAAPGag-Pol polyprotein2.7.7.490.613
4i2pG73Gag-Pol polyprotein2.7.7.490.597
2zd1T27Gag-Pol polyprotein2.7.7.490.596
1ikwEFZGag-Pol polyprotein2.7.7.490.593
4g1qT27Gag-Pol polyprotein2.7.7.490.589
3i0rRT3Gag-Pol polyprotein2.7.7.490.587
2vg7NNIGag-Pol polyprotein2.7.7.490.577
4id5T27Gag-Pol polyprotein2.7.7.490.576
2ze2T27Gag-Pol polyprotein2.7.7.490.575
3is9AC7Gag-Pol polyprotein2.7.7.490.574
3qlhT27Gag-Pol polyprotein2.7.7.490.574
1fk9EFZGag-Pol polyprotein2.7.7.490.567
2opsHBQGag-Pol polyprotein2.7.7.490.565
3meeT27Gag-Pol polyprotein2.7.7.490.565
4ko0JLJGag-Pol polyprotein2.7.7.490.564
1hnvTBOGag-Pol polyprotein2.7.7.490.563
1tkxGWBGag-Pol polyprotein2.7.7.490.562
1hpzAAPGag-Pol polyprotein2.7.7.490.561
1ikyMSDGag-Pol polyprotein2.7.7.490.559
4kko1REGag-Pol polyprotein2.7.7.490.559
1ikvEFZGag-Pol polyprotein2.7.7.490.558
1ikxPNUGag-Pol polyprotein2.7.7.490.558
2rf2MRXGag-Pol polyprotein2.7.7.490.557
4i7fNVEGag-Pol polyprotein2.7.7.490.556
1rt7UC4Gag-Pol polyprotein2.7.7.490.555
3megT27Gag-Pol polyprotein2.7.7.490.550
3ffi3OBGag-Pol polyprotein2.7.7.490.547
1s9eADBGag-Pol polyprotein2.7.7.490.544
3m8qDJZGag-Pol polyprotein2.7.7.490.543
2vg5NNCGag-Pol polyprotein2.7.7.490.540
3irxUDRGag-Pol polyprotein2.7.7.490.540
2ban357Gag-Pol polyprotein2.7.7.490.539
1rt2TNKGag-Pol polyprotein2.7.7.490.538
1rt5UC2Gag-Pol polyprotein2.7.7.490.538
1eetBFUGag-Pol polyprotein2.7.7.490.536
1s6qTPBGag-Pol polyprotein2.7.7.490.536
4ifvT27Gag-Pol polyprotein2.7.7.490.536
4ig3T27Gag-Pol polyprotein2.7.7.490.533
3dmjGWEPol protein/0.531
2hndNVPGag-Pol polyprotein2.7.7.490.530
3nbpJGZGag-Pol polyprotein2.7.7.490.528
1tvrTB9Gag-Pol polyprotein2.7.7.490.521
1jlcFTCGag-Pol polyprotein2.7.7.490.520
3mec65BGag-Pol polyprotein2.7.7.490.519
3med65BGag-Pol polyprotein2.7.7.490.518
4kfbT27Gag-Pol polyprotein2.7.7.490.513
4i2q1BTGag-Pol polyprotein2.7.7.490.512
3i0sRT7Gag-Pol polyprotein2.7.7.490.510
3dleGFAGag-Pol polyprotein2.7.7.490.505
1rt1MKCGag-Pol polyprotein2.7.7.490.504
1hniAAAGag-Pol polyprotein2.7.7.490.503
1jlgUC1Gag-Pol polyprotein2.7.7.490.503
3m8p65BGag-Pol polyprotein2.7.7.490.503
1c1c612Gag-Pol polyprotein2.7.7.490.502
4rw6494Gag-Pol polyprotein2.7.7.490.499
1klmSPPGag-Pol polyprotein2.7.7.490.497
3zoiM2WIsopenicillin N synthase1.21.3.10.496
3lalKRVGag-Pol polyprotein2.7.7.490.495
1jlqSBNGag-Pol polyprotein2.7.7.490.494
1w06W05Isopenicillin N synthase1.21.3.10.493
3t1a5MAGag-Pol polyprotein2.7.7.490.489
3bgrT27Gag-Pol polyprotein2.7.7.490.488
3lamKRPGag-Pol polyprotein2.7.7.490.487
1hquHBYGag-Pol polyprotein2.7.7.490.486
2hnzPC0Gag-Pol polyprotein2.7.7.490.484
1s1tUC1Gag-Pol polyprotein2.7.7.490.483
3lanKBTGag-Pol polyprotein2.7.7.490.475
4jib1L6cGMP-dependent 3',5'-cyclic phosphodiesterase3.1.4.170.475
1dhfFOLDihydrofolate reductase1.5.1.30.471
3c6uM22Gag-Pol polyprotein2.7.7.490.471
1fkoEFZGag-Pol polyprotein2.7.7.490.469
1hb3SCVIsopenicillin N synthase1.21.3.10.469
4anuEM7Phosphatidylinositol 4,5-bisphosphate 3-kinase catalytic subunit gamma isoform2.7.1.1530.468
1qxlFR8Adenosine deaminase3.5.4.40.467
2iviACWIsopenicillin N synthase1.21.3.10.467
5k2bZMAAdenosine receptor A2a/0.467
2z7gEH9Adenosine deaminase3.5.4.40.465
1qiqACCIsopenicillin N synthase1.21.3.10.464
2jb4A14Isopenicillin N synthase1.21.3.10.464
5cyqT27Gag-Pol polyprotein2.7.7.490.464
4bb3KKAIsopenicillin N synthase1.21.3.10.463
1l2jETCEstrogen receptor beta/0.462
2cciATPCyclin-dependent kinase 22.7.11.220.462
3dxjNE6DNA-directed RNA polymerase subunit beta/0.462
3dxjNE6DNA-directed RNA polymerase subunit beta'/0.462
3nx4NAPPutative oxidoreductase/0.459
4ure1PSCyclohexanol dehydrogenase/0.459
1bvrTHTEnoyl-[acyl-carrier-protein] reductase [NADH]1.3.1.90.458
4dk50KOPhosphatidylinositol 4,5-bisphosphate 3-kinase catalytic subunit gamma isoform2.7.1.1530.458
4ucnMYAGlycylpeptide N-tetradecanoyltransferase/0.458
1osvCHCBile acid receptor/0.457
3gc9B45Mitogen-activated protein kinase 112.7.11.240.457
1kb9SMACytochrome b/0.456
2ph5NADHomospermidine synthase/0.456
4c2yMYAGlycylpeptide N-tetradecanoyltransferase 1/0.456
2lbaCHOFatty acid binding protein 6/0.455
2ydoADNAdenosine receptor A2a/0.455
3zw3ZW3Phosphatidylinositol 4,5-bisphosphate 3-kinase catalytic subunit gamma isoform2.7.1.1530.455
1hb1OCVIsopenicillin N synthase1.21.3.10.454
1n4hREANuclear receptor ROR-beta/0.454
2b5j3ACGag-Pol polyprotein2.7.7.490.454
2y60M8FIsopenicillin N synthase1.21.3.10.454
3g4gD71cAMP-specific 3',5'-cyclic phosphodiesterase 4D3.1.4.530.454
1kt3RTLRetinol-binding protein 4/0.453
1pkfEPDEpothilone C/D epoxidase1.140.453
1t1rIMB1-deoxy-D-xylulose 5-phosphate reductoisomerase1.1.1.2670.453
2hqpNDPDihydrofolate reductase1.5.1.30.453
3th8TH9Ditrans,polycis-undecaprenyl-diphosphate synthase ((2E,6E)-farnesyl-diphosphate specific)2.5.1.310.453
2hw2RFPRifampin ADP-ribosyl transferase/0.452
3dgaNDPBifunctional dihydrofolate reductase-thymidylate synthase1.5.1.30.452
3h0a9RARetinoic acid receptor RXR-alpha/0.452
3s3vTOPDihydrofolate reductase1.5.1.30.452
1bk0ACVIsopenicillin N synthase1.21.3.10.451
1oc1ASVIsopenicillin N synthase1.21.3.10.451
2vbpVB1Isopenicillin N synthase1.21.3.10.451
2zjwREFCasein kinase II subunit alpha2.7.11.10.451
3qm4PN0Cytochrome P450 2D6/0.451
3zkyWT4Isopenicillin N synthase1.21.3.10.451
4g090VDHistidinol dehydrogenase/0.451
3r374CO4-hydroxybenzoyl-CoA thioesterase3.1.2.230.450
3s7a684Dihydrofolate reductase1.5.1.30.450
4eufNADTrans-2-enoyl-CoA reductase [NADH]/0.450
4j03FVSBifunctional epoxide hydrolase 23.1.3.760.450
2chz093Phosphatidylinositol 4,5-bisphosphate 3-kinase catalytic subunit gamma isoform2.7.1.1530.449
2h96893Mitogen-activated protein kinase 82.7.11.240.449
2oprHBQGag-Pol polyprotein2.7.7.490.449
4bbhNHWGlycylpeptide N-tetradecanoyltransferase/0.449
4cx4HW9Nitric oxide synthase, brain1.14.13.390.449
3ctj320Hepatocyte growth factor receptor2.7.10.10.448
3r7cFADFAD-linked sulfhydryl oxidase ALR1.8.3.20.448
3sgv2BJDitrans,polycis-undecaprenyl-diphosphate synthase ((2E,6E)-farnesyl-diphosphate specific)2.5.1.310.448
4at3LTIBDNF/NT-3 growth factors receptor2.7.10.10.448
4eiyZMAAdenosine receptor A2a/0.448
1bvrNADEnoyl-[acyl-carrier-protein] reductase [NADH]1.3.1.90.447
1fm4DXCMajor pollen allergen Bet v 1-L/0.447
1ndeMONEstrogen receptor beta/0.447
1qjfACSIsopenicillin N synthase1.21.3.10.447
1v7aFRCAdenosine deaminase3.5.4.40.447
2chx090Phosphatidylinositol 4,5-bisphosphate 3-kinase catalytic subunit gamma isoform2.7.1.1530.447
2gu8796cAMP-dependent protein kinase catalytic subunit alpha2.7.11.110.447
2jleI15Reverse transcriptase/RNaseH/0.447
2pr2DG1Enoyl-[acyl-carrier-protein] reductase [NADH]1.3.1.90.447
3n0hTOPDihydrofolate reductase1.5.1.30.447
3r3b4CO4-hydroxybenzoyl-CoA thioesterase3.1.2.230.447
3tea4CO4-hydroxybenzoyl-CoA thioesterase3.1.2.230.447
3vvpBNUUncharacterized protein/0.447
4bgiI4IEnoyl-[acyl-carrier-protein] reductase [NADH]1.3.1.90.447
1p44GEQEnoyl-[acyl-carrier-protein] reductase [NADH]1.3.1.90.446
1v79FR7Adenosine deaminase3.5.4.40.446
1y60H4M5,6,7,8-tetrahydromethanopterin hydro-lyase4.2.1.1470.446
2vn0TDZCytochrome P450 2C8/0.446
2w9sTOPDihydrofolate reductase type 1 from Tn40031.5.1.30.446
3bfa9ODOdorant binding protein ASP1/0.446
3p6nDSOCamphor 5-monooxygenase1.14.15.10.446
4mfb29TGag-Pol polyprotein2.7.7.490.446
1ai9NDPDihydrofolate reductase1.5.1.30.445
1xqcAEJEstrogen receptor/0.445
2wufKEM4,5:9,10-diseco-3-hydroxy-5,9,17-trioxoandrosta-1(10),2-diene-4-oate hydrolase3.7.1.170.445
3hz5Z64Heat shock protein HSP 90-alpha/0.445
3qlrNDPDihydrofolate reductase1.5.1.30.445
3qrwNDPPutative ketoacyl reductase1.3.10.445
3rqjY2BNitric oxide synthase, brain1.14.13.390.445
4b13NHWGlycylpeptide N-tetradecanoyltransferase/0.445
4ezj0SCPhosphatidylinositol 4,5-bisphosphate 3-kinase catalytic subunit gamma isoform2.7.1.1530.445
4g310WHEukaryotic translation initiation factor 2-alpha kinase 32.7.11.10.445
1o5rFR9Adenosine deaminase3.5.4.40.444
1pd9CO4Dihydrofolate reductase1.5.1.30.444
1s3vTQDDihydrofolate reductase1.5.1.30.444
2cl5BIECatechol O-methyltransferase2.1.1.60.444
3gyuDL7Nuclear hormone receptor of the steroid/thyroid hormone receptors superfamily/0.444
3m0eATPTranscriptional regulator (NtrC family)/0.444
3ml8ML8Phosphatidylinositol 4,5-bisphosphate 3-kinase catalytic subunit gamma isoform2.7.1.1530.444
3tqhNDPQuinone oxidoreductase/0.444
4dggI76Proto-oncogene tyrosine-protein kinase Src2.7.10.20.444
5iua6DXAdenosine receptor A2a/0.444
1e8wQUEPhosphatidylinositol 4,5-bisphosphate 3-kinase catalytic subunit gamma isoform2.7.1.1530.443
1ezvSMACytochrome b/0.443
1fpqSAMIsoliquiritigenin 2'-O-methyltransferase/0.443
3hub469Mitogen-activated protein kinase 14/0.443
4ez72ANCyclin-dependent kinase 22.7.11.220.443
4g34924Eukaryotic translation initiation factor 2-alpha kinase 32.7.11.10.443
4hnc0UTMandelate racemase/0.443
4iui1GQEstrogen receptor/0.443
1ep4S11Gag-Pol polyprotein2.7.7.490.442
1pl8NADSorbitol dehydrogenase1.1.1.140.442
1q3wATUGlycogen synthase kinase-3 beta2.7.11.260.442
1sj0E4DEstrogen receptor/0.442
2p4yC03Peroxisome proliferator-activated receptor gamma/0.442
3apfBMWPhosphatidylinositol 4,5-bisphosphate 3-kinase catalytic subunit gamma isoform2.7.1.1530.442
3sgx0FWDitrans,polycis-undecaprenyl-diphosphate synthase ((2E,6E)-farnesyl-diphosphate specific)2.5.1.310.442
3t3r9PLCytochrome P450 2A61.14.130.442
4anx534Phosphatidylinositol 4,5-bisphosphate 3-kinase catalytic subunit gamma isoform2.7.1.1530.442
4c2zMYAGlycylpeptide N-tetradecanoyltransferase 1/0.442
4geb0LDKynurenine/alpha-aminoadipate aminotransferase, mitochondrial2.6.1.390.442
4lmuQUESerine/threonine-protein kinase pim-12.7.11.10.442
5k2cZMAAdenosine receptor A2a/0.442
5jtbZMAAdenosine receptor A2a/0.442
1dkfBMSRetinoic acid receptor alpha/0.441
1kt6RTLRetinol-binding protein 4/0.441
2e9aB28Ditrans,polycis-undecaprenyl-diphosphate synthase ((2E,6E)-farnesyl-diphosphate specific)2.5.1.310.441
2wonZZEGag-Pol polyprotein2.7.7.490.441
3tvxPNXcAMP-specific 3',5'-cyclic phosphodiesterase 4A3.1.4.530.441
3ufvHW9Nitric oxide synthase, brain1.14.13.390.441
4wo5324Serine/threonine-protein kinase B-raf2.7.11.10.441
4xuhSFIPeroxisome proliferator-activated receptor gamma/0.441
1re9DSOCamphor 5-monooxygenase1.14.15.10.440
1yqj6NPMitogen-activated protein kinase 14/0.440
2qmzLDPRibosyldihydronicotinamide dehydrogenase [quinone]/0.440
2wsaMYAGlycylpeptide N-tetradecanoyltransferase/0.440
3sz0FADSulfide-quinone reductase/0.440
5iu4ZMAAdenosine receptor A2a/0.440
5iu86DZAdenosine receptor A2a/0.440
5uviZMAAdenosine receptor A2a/0.440