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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
4i7fNVEGag-Pol polyprotein2.7.7.49

Complex with similar binding sites

PDB ID HET Uniprot Name EC Number Binding Site
Similarity		 Align
4i7fNVEGag-Pol polyprotein2.7.7.491.000
3lamKRPGag-Pol polyprotein2.7.7.490.642
3ffi3OBGag-Pol polyprotein2.7.7.490.610
1jlaTNKGag-Pol polyprotein2.7.7.490.608
1rt2TNKGag-Pol polyprotein2.7.7.490.599
3dleGFAGag-Pol polyprotein2.7.7.490.597
1c1bGCAGag-Pol polyprotein2.7.7.490.591
3lanKBTGag-Pol polyprotein2.7.7.490.589
3i0sRT7Gag-Pol polyprotein2.7.7.490.582
1klmSPPGag-Pol polyprotein2.7.7.490.579
1ep4S11Gag-Pol polyprotein2.7.7.490.578
1s1vTNKGag-Pol polyprotein2.7.7.490.571
3c6tM14Gag-Pol polyprotein2.7.7.490.565
3di6PDZGag-Pol polyprotein2.7.7.490.565
3dokGWJPol protein/0.565
3m8qDJZGag-Pol polyprotein2.7.7.490.564
3dmjGWEPol protein/0.562
3is9AC7Gag-Pol polyprotein2.7.7.490.561
3dyaPZLGag-Pol polyprotein2.7.7.490.554
2ze2T27Gag-Pol polyprotein2.7.7.490.546
1tvrTB9Gag-Pol polyprotein2.7.7.490.544
3dolGWIPol protein/0.542
3drrR8EGag-Pol polyprotein2.7.7.490.541
5cyqT27Gag-Pol polyprotein2.7.7.490.539
4rw4494Gag-Pol polyprotein2.7.7.490.535
3nbpJGZGag-Pol polyprotein2.7.7.490.533
1hquHBYGag-Pol polyprotein2.7.7.490.531
1rtiHEFGag-Pol polyprotein2.7.7.490.528
3i0rRT3Gag-Pol polyprotein2.7.7.490.526
2be2R22Gag-Pol polyprotein2.7.7.490.524
3lakKR1Gag-Pol polyprotein2.7.7.490.519
1tkzH16Gag-Pol polyprotein2.7.7.490.517
1hpzAAPGag-Pol polyprotein2.7.7.490.516
1c1c612Gag-Pol polyprotein2.7.7.490.515
3c6uM22Gag-Pol polyprotein2.7.7.490.515
1rt1MKCGag-Pol polyprotein2.7.7.490.514
3drpR8EGag-Pol polyprotein2.7.7.490.506
4ig3T27Gag-Pol polyprotein2.7.7.490.505
4i2q1BTGag-Pol polyprotein2.7.7.490.504
1revTB9Gag-Pol polyprotein2.7.7.490.503
3e01PZ2Gag-Pol polyprotein2.7.7.490.502
3dlgGWEGag-Pol polyprotein2.7.7.490.501
1vruAAPGag-Pol polyprotein2.7.7.490.500
2vg7NNIGag-Pol polyprotein2.7.7.490.499
1tktH12Gag-Pol polyprotein2.7.7.490.496
1ikwEFZGag-Pol polyprotein2.7.7.490.492
1s9eADBGag-Pol polyprotein2.7.7.490.490
2ic3HBYGag-Pol polyprotein2.7.7.490.489
3t1a5MAGag-Pol polyprotein2.7.7.490.489
1eetBFUGag-Pol polyprotein2.7.7.490.485
2cf6NAPCinnamyl alcohol dehydrogenase 51.1.1.1950.484
2rf2MRXGag-Pol polyprotein2.7.7.490.482
3t195MAGag-Pol polyprotein2.7.7.490.482
3tamM06Gag-Pol polyprotein2.7.7.490.481
1rt5UC2Gag-Pol polyprotein2.7.7.490.480
3megT27Gag-Pol polyprotein2.7.7.490.480
4kko1REGag-Pol polyprotein2.7.7.490.480
1ikxPNUGag-Pol polyprotein2.7.7.490.479
2rkiTT1Gag-Pol polyprotein2.7.7.490.479
2ynfWHUGag-Pol polyprotein2.7.7.490.477
4ko0JLJGag-Pol polyprotein2.7.7.490.477
1s1wUC1Gag-Pol polyprotein2.7.7.490.476
1s6qTPBGag-Pol polyprotein2.7.7.490.475
2vg5NNCGag-Pol polyprotein2.7.7.490.475
2zjwREFCasein kinase II subunit alpha2.7.11.10.470
3s1dZIRCytokinin dehydrogenase 11.5.99.120.470
3sgtP09Ditrans,polycis-undecaprenyl-diphosphate synthase ((2E,6E)-farnesyl-diphosphate specific)/0.470
1oiyN41Cyclin-dependent kinase 22.7.11.220.469
3g49NAPCorticosteroid 11-beta-dehydrogenase isozyme 11.1.1.1460.469
4h4uNDPBiphenyl dioxygenase ferredoxin reductase subunit/0.469
3pwhZMAAdenosine receptor A2a/0.468
1hniAAAGag-Pol polyprotein2.7.7.490.467
1n83CLRNuclear receptor ROR-alpha/0.467
2vttLZDCyclin-dependent kinase 22.7.11.220.467
3vt9YI4Vitamin D3 receptor/0.466
4r21STRCytochrome P450 family 17 polypeptide 2/0.466
2vv9IM9Cyclin-dependent kinase 22.7.11.220.465
2y1oT26UDP-N-acetylmuramoylalanine--D-glutamate ligase6.3.2.90.465
4mq12C3Dual specificity tyrosine-phosphorylation-regulated kinase 1A2.7.12.10.464
5a27MYAGlycylpeptide N-tetradecanoyltransferase/0.464
2ban357Gag-Pol polyprotein2.7.7.490.463
3flkNAITartrate dehydrogenase/decarboxylase1.1.1.930.463
3i59N6RCRP-like cAMP-activated global transcriptional regulator/0.463
4acm7YGCyclin-dependent kinase 22.7.11.220.463
1uuoBRFDihydroorotate dehydrogenase (quinone), mitochondrial1.3.5.20.462
2b52D42Cyclin-dependent kinase 22.7.11.220.462
3vweCOAAlpha-tubulin N-acetyltransferase 1/0.462
4kcfAKMFAD-dependent oxidoreductase/0.462
4ez8DHFThymidylate synthase2.1.1.450.461
4jqeANPCasein kinase II subunit alpha2.7.11.10.461
1cx2S58Prostaglandin G/H synthase 21.14.99.10.460
1qcfPP1Tyrosine-protein kinase HCK2.7.10.20.460
3qk0QK0Phosphatidylinositol 4,5-bisphosphate 3-kinase catalytic subunit gamma isoform2.7.1.1530.460
3qlrNDPDihydrofolate reductase1.5.1.30.460
4gdy0X1Kynurenine/alpha-aminoadipate aminotransferase, mitochondrial2.6.1.390.460
2nruT12Interleukin-1 receptor-associated kinase 42.7.11.10.459
3iaeD7KBenzaldehyde lyase/0.459
4grb0XGCasein kinase II subunit alpha2.7.11.10.459
4mq22C4Dual specificity tyrosine-phosphorylation-regulated kinase 1A2.7.12.10.458
1qbgFADNAD(P)H dehydrogenase [quinone] 11.6.5.20.457
1ia4TQ6Dihydrofolate reductase1.5.1.30.456
2nnhREACytochrome P450 2C8/0.456
3bc3OPTCathepsin L13.4.22.150.456
3dheANDEstradiol 17-beta-dehydrogenase 11.1.1.620.456
4fkv61KCyclin-dependent kinase 22.7.11.220.456
2w17I19Cyclin-dependent kinase 22.7.11.220.455
3be9P04Casein kinase II subunit alpha2.7.11.10.455
4iteTEYVitamin D3 receptor/0.455
3kpkFADSulfide-quinone reductase/0.454
3zep1NXTyrosine-protein kinase JAK32.7.10.20.454
1jlqSBNGag-Pol polyprotein2.7.7.490.453
2vu3LZECyclin-dependent kinase 22.7.11.220.453
3at4CCKCasein kinase II subunit alpha2.7.11.10.453
3mpiFADGlutaryl-CoA dehydrogenase1.3.99.320.453
4anx534Phosphatidylinositol 4,5-bisphosphate 3-kinase catalytic subunit gamma isoform2.7.1.1530.453
4v2gITCTetracycline repressor protein class D/0.453
4zjuNADEnoyl-[acyl-carrier-protein] reductase [NADH]/0.453
1aq1STUCyclin-dependent kinase 22.7.11.220.452
3mfsANPPeripheral plasma membrane protein CASK2.7.11.10.452
3vrwYS5Vitamin D3 receptor/0.452
4ri1ACOUDP-4-amino-4,6-dideoxy-N-acetyl-beta-L-altrosamine N-acetyltransferase2.3.1.2020.452
1oi9N20Cyclin-dependent kinase 22.7.11.220.451
1tkxGWBGag-Pol polyprotein2.7.7.490.451
2bx8AZQSerum albumin/0.451
2qa2FADPolyketide oxygenase CabE/0.451
2xc3RT8Steroid C26-monooxygenase1.14.13.1410.451
3m8p65BGag-Pol polyprotein2.7.7.490.451
4b14NHWGlycylpeptide N-tetradecanoyltransferase/0.451
4ge70K5Kynurenine/alpha-aminoadipate aminotransferase, mitochondrial2.6.1.390.451
2dr3ADPUPF0273 protein PH0284/0.450
2vnhFADNADPH:ferredoxin reductase/0.450
2w9sTOPDihydrofolate reductase type 1 from Tn40031.5.1.30.450
2x7hPFNProstaglandin reductase 310.450
3nww3NWMitogen-activated protein kinase 14/0.450
4ly91YYGlucokinase regulatory protein/0.450
4m87NADEnoyl-[acyl-carrier-protein] reductase [NADH]/0.450
1j39UPGDNA beta-glucosyltransferase/0.449
2chz093Phosphatidylinositol 4,5-bisphosphate 3-kinase catalytic subunit gamma isoform2.7.1.1530.449
2harOCCVitamin D3 receptor/0.449
2nrySTUInterleukin-1 receptor-associated kinase 42.7.11.10.449
3kjsNAPBifunctional dihydrofolate reductase-thymidylate synthase/0.449
3q71AR6Poly [ADP-ribose] polymerase 142.4.2.300.449
4ftcH6KSerine/threonine-protein kinase Chk12.7.11.10.449
1oiuN76Cyclin-dependent kinase 22.7.11.220.448
1osvCHCBile acid receptor/0.448
1zeoC01Peroxisome proliferator-activated receptor gamma/0.448
2c3qGTXGlutathione S-transferase theta-12.5.1.180.448
2iw94SPCyclin-dependent kinase 22.7.11.220.448
2opqHBQGag-Pol polyprotein2.7.7.490.448
3d7kD7KBenzaldehyde lyase/0.448
3vt5YI2Vitamin D3 receptor/0.448
3vt8YI3Vitamin D3 receptor/0.448
4a9mP9MBromodomain-containing protein 2/0.448
4b12NHWGlycylpeptide N-tetradecanoyltransferase/0.448
4oxyNADEnoyl-[acyl-carrier-protein] reductase [NADH]1.3.1.90.448
5eypLOCTubulin beta chain/0.448
1i7iAZ2Peroxisome proliferator-activated receptor gamma/0.447
1tysDHFThymidylate synthase/0.447
2chx090Phosphatidylinositol 4,5-bisphosphate 3-kinase catalytic subunit gamma isoform2.7.1.1530.447
2y05NAPProstaglandin reductase 1/0.447
4c7kNAPCorticosteroid 11-beta-dehydrogenase isozyme 11.1.1.1460.447
4hbm0Y7E3 ubiquitin-protein ligase Mdm26.3.20.447
4u97STUInterleukin-1 receptor-associated kinase 42.7.11.10.447
1ie8KH1Vitamin D3 receptor/0.446
1ot7CHCBile acid receptor/0.446
2hndNVPGag-Pol polyprotein2.7.7.490.446
2hrcCHDFerrochelatase, mitochondrial4.99.1.10.446
3l0lHC3Nuclear receptor ROR-gamma/0.446
3rak03ZCyclin-dependent kinase 22.7.11.220.446
4rupH97Vitamin D3 receptor A/0.446
6coxS58Prostaglandin G/H synthase 21.14.99.10.446
1ai9NDPDihydrofolate reductase1.5.1.30.445
2hamC33Vitamin D3 receptor/0.445
2om9AJAPeroxisome proliferator-activated receptor gamma/0.445
3hdmMMGSerine/threonine-protein kinase Sgk12.7.11.10.445
3med65BGag-Pol polyprotein2.7.7.490.445
3vt45YIVitamin D3 receptor/0.445
3vt7VDXVitamin D3 receptor/0.445
4cd2FOLDihydrofolate reductase1.5.1.30.445
4jq8KJ8Epidermal growth factor receptor2.7.10.10.445
4kioG5KTyrosine-protein kinase ITK/TSK2.7.10.20.445
1jtvTESEstradiol 17-beta-dehydrogenase 11.1.1.620.444
1kt3RTLRetinol-binding protein 4/0.444
1kzjCB3Thymidylate synthase/0.444
1v0oINRCell division control protein 2 homolog2.7.11.220.444
2e9cB75Ditrans,polycis-undecaprenyl-diphosphate synthase ((2E,6E)-farnesyl-diphosphate specific)2.5.1.310.444
2pvnP63Casein kinase II subunit alpha2.7.11.10.444
2wyvNADEnoyl-[acyl-carrier-protein] reductase [NADH]/0.444
3c0g3AMPeripheral plasma membrane protein CASK2.7.11.10.444
3syiFADSulfide-quinone reductase/0.444
3vt65YIVitamin D3 receptor/0.444
3w5tLHPVitamin D3 receptor/0.444
4e5yNDPGDP-L-fucose synthase1.1.1.2710.444
4gkvNADAlcohol dehydrogenase, propanol-preferring1.1.1.10.444
4u9zCOAAlpha-tubulin N-acetyltransferase 1/0.444
4z34ON7Lysophosphatidic acid receptor 1/0.444
1e7qNAPGDP-L-fucose synthase/0.443
2ardFDAFlavin-dependent tryptophan halogenase PrnA1.14.19.90.443
2cig1DGDihydrofolate reductase1.5.1.30.443
2h2qNAPBifunctional dihydrofolate reductase-thymidylate synthase1.5.1.30.443
2vbdV10Isopenicillin N synthase1.21.3.10.443
3cgfJNFMitogen-activated protein kinase 102.7.11.240.443
3clbNAPBifunctional dihydrofolate reductase-thymidylate synthase1.5.1.30.443
3eldSFGMethyltransferase/0.443
3wmxNADNAD dependent epimerase/dehydratase/0.443
4anv751Phosphatidylinositol 4,5-bisphosphate 3-kinase catalytic subunit gamma isoform2.7.1.1530.443
4e8yIHAD-beta-D-heptose 7-phosphate kinase/0.443
4ge40KEKynurenine/alpha-aminoadipate aminotransferase, mitochondrial2.6.1.390.443
4iui1GQEstrogen receptor/0.443
4q71FADBifunctional protein PutA/0.443
1h2bNAJNAD-dependent alcohol dehydrogenase/0.442
1r2jFADFkbI/0.442
2f7x4EAcAMP-dependent protein kinase catalytic subunit alpha2.7.11.110.442
2jdsL20cAMP-dependent protein kinase catalytic subunit alpha2.7.11.110.442
2oprHBQGag-Pol polyprotein2.7.7.490.442
2uxpCLMHTH-type transcriptional regulator TtgR/0.442
3gw9VNILanosterol 14-alpha-demethylase/0.442
3t1tGDPProbable gliding protein mglA/0.442
3uoyNAP2-oxo-Delta(3)-4,5,5-trimethylcyclopentenylacetyl-CoA monooxygenase1.14.13.1600.442
4ambDUDPutative glycosyl transferase/0.442
4fjz4FJPhosphatidylinositol 4,5-bisphosphate 3-kinase catalytic subunit gamma isoform2.7.1.1530.442
4h6rFDAProline dehydrogenase/0.442
4xldBRLPeroxisome proliferator-activated receptor gamma/0.442
1hdrNADDihydropteridine reductase1.5.1.340.441
1j21ATPArgininosuccinate synthase/0.441
1k74544Peroxisome proliferator-activated receptor gamma/0.441
2hmaSAMtRNA-specific 2-thiouridylase MnmA/0.441
3livE16Protease/0.441
3mqe416Prostaglandin G/H synthase 21.14.99.10.441
3up5NAP2-oxo-Delta(3)-4,5,5-trimethylcyclopentenylacetyl-CoA monooxygenase1.14.13.1600.441
4gllNADUDP-glucuronic acid decarboxylase 14.1.1.350.441
4nr42LKCREB-binding protein/0.441
1e8zSTUPhosphatidylinositol 4,5-bisphosphate 3-kinase catalytic subunit gamma isoform2.7.1.1530.440
1y5rC0RCorticosteroid 11-beta-dehydrogenase isozyme 11.1.1.1460.440
2f4bEHAPeroxisome proliferator-activated receptor gamma/0.440
2gsdNADFormate dehydrogenase/0.440
2hasC3OVitamin D3 receptor/0.440
2uxuNARHTH-type transcriptional regulator TtgR/0.440
2x1nX1NCyclin-dependent kinase 22.7.11.220.440
3hx4ANPCalmodulin-domain protein kinase 1/0.440
4g7gVFVLanosterol 14-alpha-demethylase/0.440
4j03FVSBifunctional epoxide hydrolase 23.1.3.760.440
4nb6444Nuclear receptor ROR-gamma/0.440