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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
2y6dTQJMatrilysin3.4.24.23

Complex with similar binding sites

PDB ID HET Uniprot Name EC Number Binding Site
Similarity		 Align
2y6dTQJMatrilysin3.4.24.231.000
1hy7MBSStromelysin-13.4.24.170.551
1ztq033Collagenase 33.4.240.519
1uttCP8Macrophage metalloelastase3.4.24.650.505
2d1oFA4Stromelysin-13.4.24.170.501
2yig5ELCollagenase 33.4.240.482
3i7i518Collagenase 33.4.240.479
1caqDPSStromelysin-13.4.24.170.478
4a2zVIQGlycylpeptide N-tetradecanoyltransferase/0.478
2woa576Macrophage metalloelastase3.4.24.650.476
3tskQEGMacrophage metalloelastase3.4.24.650.476
1b8yIN7Stromelysin-13.4.24.170.475
2ow06MRMatrix metalloproteinase-93.4.24.350.475
3ljgEEFMacrophage metalloelastase3.4.24.650.475
4gqlR47Macrophage metalloelastase3.4.24.650.475
3aw9NADNAD-dependent epimerase/dehydratase/0.473
1g49111Stromelysin-13.4.24.170.472
3lilEEAMacrophage metalloelastase3.4.24.650.471
1youPFDCollagenase 33.4.240.469
3nx4NAPPutative oxidoreductase/0.469
4gr3R45Macrophage metalloelastase3.4.24.650.469
4gr8R4CMacrophage metalloelastase3.4.24.650.469
4guyKLJMacrophage metalloelastase3.4.24.650.469
4g9lNGHStromelysin-13.4.24.170.466
2d1nFA4Collagenase 33.4.240.465
3kry3KRCollagenase 33.4.240.465
4c2z646Glycylpeptide N-tetradecanoyltransferase 1/0.465
1so2666cGMP-inhibited 3',5'-cyclic phosphodiesterase B3.1.4.170.464
2ejzSAHDiphthine synthase/0.463
4a7b3W5Collagenase 33.4.240.463
2wo8077Macrophage metalloelastase3.4.24.650.462
3kec3KECollagenase 33.4.240.462
3i7g732Collagenase 33.4.240.461
4a7b3W4Collagenase 33.4.240.461
4nr42LKCREB-binding protein/0.461
1slnINHStromelysin-13.4.24.170.460
1xagNAD3-dehydroquinate synthase/0.460
2hu637AMacrophage metalloelastase3.4.24.650.460
3ts4EEGMacrophage metalloelastase3.4.24.650.459
3l8sBFFMitogen-activated protein kinase 14/0.457
3rk708ZCyclin-dependent kinase 22.7.11.220.457
4an4DUDPutative glycosyl transferase/0.457
4ri1ACOUDP-4-amino-4,6-dideoxy-N-acetyl-beta-L-altrosamine N-acetyltransferase2.3.1.2020.457
3p3zP3ZPutative cytochrome P450/0.456
1zvxFINNeutrophil collagenase3.4.24.340.455
4e907RGHigh affinity cGMP-specific 3',5'-cyclic phosphodiesterase 9A/0.455
2om9AJAPeroxisome proliferator-activated receptor gamma/0.454
4n4v2GYTankyrase-12.4.2.300.454
5ab7MLCNonspecific lipid-transfer protein, putative/0.454
1zs0EINNeutrophil collagenase3.4.24.340.452
3sn6P0GBeta-2 adrenergic receptor/0.452
2wo9068Macrophage metalloelastase3.4.24.650.451
3cid318Beta-secretase 13.4.23.460.451
3o2x3O2Collagenase 33.4.240.451
5ab6CAANonspecific lipid-transfer protein, putative/0.451
1oc1ASVIsopenicillin N synthase1.21.3.10.450
4dpeNGHStromelysin-13.4.24.170.450
4q0kGA3Phytohormone-binding protein/0.450
1bqoN25Stromelysin-13.4.24.170.449
1cizDPSStromelysin-13.4.24.170.449
3hazFADBifunctional protein PutA/0.449
3u9fCLMChloramphenicol acetyltransferase2.3.1.280.449
1c8tTR1Stromelysin-13.4.24.170.448
4f1l0RYPoly [ADP-ribose] polymerase 142.4.2.300.448
1qzfCB3Bifunctional dihydrofolate reductase-thymidylate synthase/0.447
3c0g3AMPeripheral plasma membrane protein CASK2.7.11.10.447
3lpkZ76Beta-secretase 13.4.23.460.447
4gr0R4BMacrophage metalloelastase3.4.24.650.447
2pr2DG1Enoyl-[acyl-carrier-protein] reductase [NADH]1.3.1.90.446
3zkyWT4Isopenicillin N synthase1.21.3.10.446
4a312CBGlycylpeptide N-tetradecanoyltransferase/0.446
1qiqACCIsopenicillin N synthase1.21.3.10.445
2ow17MRMatrix metalloproteinase-93.4.24.350.445
3gyuDL7Nuclear hormone receptor of the steroid/thyroid hormone receptors superfamily/0.445
1zidZIDEnoyl-[acyl-carrier-protein] reductase [NADH]1.3.1.90.444
4cax646Glycylpeptide N-tetradecanoyltransferase2.3.1.970.444
4dc0NDPPutative ketoacyl reductase1.3.10.444
4jib1L6cGMP-dependent 3',5'-cyclic phosphodiesterase3.1.4.170.444
1bk0ACVIsopenicillin N synthase1.21.3.10.443
1pq944BOxysterols receptor LXR-beta/0.443
1ykr628Cyclin-dependent kinase 22.7.11.220.443
2w98P1ZProstaglandin reductase 21.3.1.480.443
3ekuCY9Actin-5C/0.443
3vf60H6Glucokinase2.7.1.20.443
1bwsNDPGDP-L-fucose synthase/0.442
1q9mROLcAMP-specific 3',5'-cyclic phosphodiesterase 4D3.1.4.530.442
2ovz5MRMatrix metalloproteinase-93.4.24.350.442
4jlk1NODeoxycytidine kinase2.7.1.740.442
1o8cNDPProbable acrylyl-CoA reductase AcuI1.3.1.840.441
1obnASVIsopenicillin N synthase1.21.3.10.441
1p8dCO1Oxysterols receptor LXR-beta/0.441
1v35NAIEnoyl-ACP reductase/0.441
1xurPB5Collagenase 33.4.240.441
3n5vH4BNitric oxide synthase, brain1.14.13.390.441
4a83DXCMajor pollen allergen Bet v 1-A/0.441
4h7610BMacrophage metalloelastase3.4.24.650.441
4i03L88Macrophage metalloelastase3.4.24.650.441
4jazSTLPeroxisome proliferator-activated receptor gamma/0.441
4jlm1NNDeoxycytidine kinase2.7.1.740.441
1ay0TPPTransketolase 12.2.1.10.440
1d8mBBHStromelysin-13.4.24.170.440
1hv5RXPStromelysin-33.4.240.440
1pqc444Oxysterols receptor LXR-beta/0.440
1rdt570Peroxisome proliferator-activated receptor gamma/0.440
3r8zZ63Cyclin-dependent kinase 22.7.11.220.440
3rmf20ZCyclin-dependent kinase 22.7.11.220.440
3s1h56ZCyclin-dependent kinase 22.7.11.220.440
4b13X25Glycylpeptide N-tetradecanoyltransferase/0.440
4f6w0SSCyclin-dependent kinase 82.7.11.220.440
4h3i10VBeta-secretase 13.4.23.460.440
5dqrFAD7-hydroxymethyl chlorophyll a reductase, chloroplastic1.17.7.20.440