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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
3mec65BGag-Pol polyprotein2.7.7.49

Complex with similar binding sites

PDB ID HET Uniprot Name EC Number Binding Site
Similarity		 Align
3mec65BGag-Pol polyprotein2.7.7.491.000
3med65BGag-Pol polyprotein2.7.7.490.690
3m8qDJZGag-Pol polyprotein2.7.7.490.648
3m8p65BGag-Pol polyprotein2.7.7.490.617
3meeT27Gag-Pol polyprotein2.7.7.490.589
3megT27Gag-Pol polyprotein2.7.7.490.586
4i2pG73Gag-Pol polyprotein2.7.7.490.577
4i2q1BTGag-Pol polyprotein2.7.7.490.572
3nbpJGZGag-Pol polyprotein2.7.7.490.568
3qlhT27Gag-Pol polyprotein2.7.7.490.568
2zd1T27Gag-Pol polyprotein2.7.7.490.563
2ze2T27Gag-Pol polyprotein2.7.7.490.559
4g1qT27Gag-Pol polyprotein2.7.7.490.551
1tl3H20Gag-Pol polyprotein2.7.7.490.541
3is9AC7Gag-Pol polyprotein2.7.7.490.541
3ffi3OBGag-Pol polyprotein2.7.7.490.539
3irxUDRGag-Pol polyprotein2.7.7.490.532
4id5T27Gag-Pol polyprotein2.7.7.490.532
4ifvT27Gag-Pol polyprotein2.7.7.490.531
1rt4UC1Gag-Pol polyprotein2.7.7.490.520
1tl1H18Gag-Pol polyprotein2.7.7.490.518
4rw6494Gag-Pol polyprotein2.7.7.490.515
1c1bGCAGag-Pol polyprotein2.7.7.490.510
2hnzPC0Gag-Pol polyprotein2.7.7.490.502
1jlcFTCGag-Pol polyprotein2.7.7.490.500
1s9eADBGag-Pol polyprotein2.7.7.490.500
1s6qTPBGag-Pol polyprotein2.7.7.490.498
2vg7NNIGag-Pol polyprotein2.7.7.490.498
1eetBFUGag-Pol polyprotein2.7.7.490.496
3bgrT27Gag-Pol polyprotein2.7.7.490.496
3lj3WYEPhosphatidylinositol 4,5-bisphosphate 3-kinase catalytic subunit gamma isoform2.7.1.1530.494
1tktH12Gag-Pol polyprotein2.7.7.490.492
4ig3T27Gag-Pol polyprotein2.7.7.490.491
1s1wUC1Gag-Pol polyprotein2.7.7.490.486
1rt5UC2Gag-Pol polyprotein2.7.7.490.485
3lamKRPGag-Pol polyprotein2.7.7.490.483
4kfbT27Gag-Pol polyprotein2.7.7.490.482
1ikwEFZGag-Pol polyprotein2.7.7.490.478
3i0sRT7Gag-Pol polyprotein2.7.7.490.477
3lanKBTGag-Pol polyprotein2.7.7.490.476
4ko0JLJGag-Pol polyprotein2.7.7.490.476
2w9sTOPDihydrofolate reductase type 1 from Tn40031.5.1.30.473
2rf2MRXGag-Pol polyprotein2.7.7.490.472
3i0rRT3Gag-Pol polyprotein2.7.7.490.472
3abiNADUncharacterized protein/0.471
1ikyMSDGag-Pol polyprotein2.7.7.490.469
4kko1REGag-Pol polyprotein2.7.7.490.468
1rt7UC4Gag-Pol polyprotein2.7.7.490.466
3vt9YI4Vitamin D3 receptor/0.466
4h4m494Gag-Pol polyprotein2.7.7.490.465
1hnvTBOGag-Pol polyprotein2.7.7.490.464
2q59240Peroxisome proliferator-activated receptor gamma/0.464
3p3e3P3UDP-3-O-acyl-N-acetylglucosamine deacetylase/0.463
4aotGW8Serine/threonine-protein kinase 102.7.11.10.463
1jlgUC1Gag-Pol polyprotein2.7.7.490.462
1hpzAAPGag-Pol polyprotein2.7.7.490.461
1hquHBYGag-Pol polyprotein2.7.7.490.461
4lsl1YQGag-Pol polyprotein2.7.7.490.460
4mfb29TGag-Pol polyprotein2.7.7.490.460
1jlqSBNGag-Pol polyprotein2.7.7.490.459
1tvrTB9Gag-Pol polyprotein2.7.7.490.459
2y01Y01Beta-1 adrenergic receptor/0.459
3cylVITBasic phospholipase A2 homolog piratoxin-2/0.459
3l08ZIGPhosphatidylinositol 4,5-bisphosphate 3-kinase catalytic subunit gamma isoform2.7.1.1530.459
4bidIE8Mitogen-activated protein kinase kinase kinase 52.7.11.250.459
3dmjGWEPol protein/0.458
1fk9EFZGag-Pol polyprotein2.7.7.490.457
1yinCM3Estrogen receptor/0.457
3l8p0CEAngiopoietin-1 receptor2.7.10.10.457
1revTB9Gag-Pol polyprotein2.7.7.490.456
3fl8RARDihydrofolate reductase/0.456
4rw4494Gag-Pol polyprotein2.7.7.490.456
2y03Y01Beta-1 adrenergic receptor/0.455
3s2a2NQPhosphatidylinositol 4,5-bisphosphate 3-kinase catalytic subunit gamma isoform2.7.1.1530.455
4pd6URINucleoside permease/0.455
3vs5VSGTyrosine-protein kinase HCK2.7.10.20.453
3zw3ZW3Phosphatidylinositol 4,5-bisphosphate 3-kinase catalytic subunit gamma isoform2.7.1.1530.453
4nc3ERM5-hydroxytryptamine receptor 2B/0.453
2y46MIVMycinamicin IV hydroxylase/epoxidase/0.452
4i22IREEpidermal growth factor receptor2.7.10.10.452
4jib1L6cGMP-dependent 3',5'-cyclic phosphodiesterase3.1.4.170.452
1ie4T44Transthyretin/0.451
1s1tUC1Gag-Pol polyprotein2.7.7.490.451
2opqHBQGag-Pol polyprotein2.7.7.490.451
2opsHBQGag-Pol polyprotein2.7.7.490.451
5cyqT27Gag-Pol polyprotein2.7.7.490.451
3reyXACAdenosine receptor A2a/0.451
2obyNAPQuinone oxidoreductase PIG310.450
2y02Y01Beta-1 adrenergic receptor/0.450
1kb9SMACytochrome b/0.449
2y98MIVMycinamicin IV hydroxylase/epoxidase/0.449
2ycqUPXSerine/threonine-protein kinase Chk22.7.11.10.449
3pm0BHFCytochrome P450 1B1/0.449
4jvf17XRetinal rod rhodopsin-sensitive cGMP 3',5'-cyclic phosphodiesterase subunit delta/0.449
1tkxGWBGag-Pol polyprotein2.7.7.490.448
1tkzH16Gag-Pol polyprotein2.7.7.490.448
3lakKR1Gag-Pol polyprotein2.7.7.490.448
4yt5H4MH(2)-forming methylenetetrahydromethanopterin dehydrogenase-related protein MJ1338/0.448
1tw2ERTCarminomycin 4-O-methyltransferase DnrK2.1.1.2920.447
2hcdBIVVitamin D3 receptor A/0.447
3inmNDPIsocitrate dehydrogenase [NADP] cytoplasmic1.1.1.420.447
3iw8HIZMitogen-activated protein kinase 14/0.447
3r9dX6BCyclin-dependent kinase 22.7.11.220.447
3ttjJBIMitogen-activated protein kinase 102.7.11.240.447
3vrzVRZTyrosine-protein kinase HCK2.7.10.20.447
4joa3DKALK tyrosine kinase receptor2.7.10.10.447
4oj4DIFPeroxisome proliferator-activated receptor gamma/0.447
1jpaANPEphrin type-B receptor 22.7.10.10.446
2dr3ADPUPF0273 protein PH0284/0.446
2o0uC0MMitogen-activated protein kinase 102.7.11.240.446
4anmWULCasein kinase II subunit alpha2.7.11.10.446
4ele31IDihydrofolate reductase/0.446
4ia2BIVVitamin D3 receptor A/0.446
5e8wSTUTGF-beta receptor type-12.7.11.300.446
1hniAAAGag-Pol polyprotein2.7.7.490.445
2hydADPPutative multidrug export ATP-binding/permease protein SAV18663.6.30.445
3be9P04Casein kinase II subunit alpha2.7.11.10.445
3h0aD30Peroxisome proliferator-activated receptor gamma/0.445
3h1jSMACytochrome b/0.445
4bc6XZNSerine/threonine-protein kinase 102.7.11.10.445
4h3c0YZDitrans,polycis-undecaprenyl-diphosphate synthase ((2E,6E)-farnesyl-diphosphate specific)2.5.1.310.445
3lalKRVGag-Pol polyprotein2.7.7.490.444
3w18N13Aurora kinase A2.7.11.10.444
3zbnCOA3-ketoacyl-CoA thiolase-like protein/0.444
1s0zEB1Vitamin D3 receptor/0.443
1uomPTIEstrogen receptor/0.443
3fcoIIGCorticosteroid 11-beta-dehydrogenase isozyme 11.1.1.1460.443
4hfr14MCorticosteroid 11-beta-dehydrogenase isozyme 11.1.1.1460.443
5iua6DXAdenosine receptor A2a/0.443
1jolFFODihydrofolate reductase1.5.1.30.442
2bxe1FLSerum albumin/0.442
2xkc4VQSerine/threonine-protein kinase Nek22.7.11.10.442
5ajqDB8Serine/threonine-protein kinase 102.7.11.10.442
1khrCOAStreptogramin A acetyltransferase2.3.10.441
1vruAAPGag-Pol polyprotein2.7.7.490.441
2cdz23DSerine/threonine-protein kinase PAK 42.7.11.10.441
2vg5NNCGag-Pol polyprotein2.7.7.490.441
2y00Y01Beta-1 adrenergic receptor/0.441
4b7sQLECytochrome P450 monooxygenase PikC/0.441
4hle17VPhosphatidylinositol 4,5-bisphosphate 3-kinase catalytic subunit gamma isoform2.7.1.1530.441
4ruoBIVVitamin D3 receptor A/0.441
5cvfATPCasein kinase II subunit alpha2.7.11.10.441
1bygSTUTyrosine-protein kinase CSK/0.440
1e8zSTUPhosphatidylinositol 4,5-bisphosphate 3-kinase catalytic subunit gamma isoform2.7.1.1530.440
2ban357Gag-Pol polyprotein2.7.7.490.440
2ibzSMACytochrome b/0.440
2pr2DG1Enoyl-[acyl-carrier-protein] reductase [NADH]1.3.1.90.440
3gyuDL7Nuclear hormone receptor of the steroid/thyroid hormone receptors superfamily/0.440
3lpbNVBTyrosine-protein kinase JAK2/0.440
3p6oETGCamphor 5-monooxygenase1.14.15.10.440
3vquO22Dual specificity protein kinase TTK2.7.12.10.440
4c4f7CEDual specificity protein kinase TTK2.7.12.10.440
4dgnLU2Casein kinase II subunit alpha2.7.11.10.440
4l7sG7KTyrosine-protein kinase ITK/TSK2.7.10.20.440
4o0mATPCircadian clock protein kinase KaiC2.7.11.10.440