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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
2fme3QCKinesin-like protein KIF11

Complex with similar cavities

PDB ID HET Uniprot Name EC Number Cavity
Similarity		 Align
2fme3QCKinesin-like protein KIF11/1.000
1q0bNATKinesin-like protein KIF11/0.637
2wogZZDKinesin-like protein KIF11/0.621
3k5eK5EKinesin-like protein KIF11/0.616
2q2zMKKKinesin-like protein KIF11/0.614
2x7dEGBKinesin-like protein KIF11/0.606
2g1qN9HKinesin-like protein KIF11/0.588
1x88NATKinesin-like protein KIF11/0.586
2iehMOYKinesin-like protein KIF11/0.582
4bbgV02Kinesin-like protein KIF11/0.582
2x2rX2OKinesin-like protein KIF11/0.574
2x7eX7EKinesin-like protein KIF11/0.574
3kenZZDKinesin-like protein KIF11/0.562
2xae2XAKinesin-like protein KIF11/0.560
2gm12AZKinesin-like protein KIF11/0.559
2x7cKZ9Kinesin-like protein KIF11/0.557
3k3bL31Kinesin-like protein KIF11/0.536
4as76LXKinesin-like protein KIF11/0.505
4a5yG7XKinesin-like protein KIF11/0.495
2ye42FYHeat shock protein HSP 90-alpha/0.485
1f20FADNitric oxide synthase, brain1.14.13.390.483
4z34ON7Lysophosphatidic acid receptor 1/0.475
4asg814ATP-dependent molecular chaperone HSP82/0.469
3vfa031Gag-Pol polyprotein3.4.23.160.468
4fad0TBPhosphatidylinositol 4,5-bisphosphate 3-kinase catalytic subunit gamma isoform2.7.1.1530.468
4i13FOLDihydrofolate reductase1.5.1.30.466
4wujFMNGlycoside hydrolase family 15, cellulose signaling associated protein envoy/0.466
2ydkYDKSerine/threonine-protein kinase Chk12.7.11.10.463
1jg0DDTThymidylate synthase/0.462
3tm0ANPAminoglycoside 3'-phosphotransferase2.7.1.950.461
4djqM86Pol polyprotein/0.459
4jlm1NNDeoxycytidine kinase2.7.1.740.458
2i4zDRHPeroxisome proliferator-activated receptor gamma/0.457
2vci2GJHeat shock protein HSP 90-alpha/0.456
2c3kABOSerine/threonine-protein kinase Chk12.7.11.10.455
2p1v5TNRetinoic acid receptor RXR-alpha/0.455
2wi1ZZ2Heat shock protein HSP 90-alpha/0.455
3ezrEZRCyclin-dependent kinase 22.7.11.220.455
4yqfGDPSeptin-9/0.455
1w2xRCPAcetyl-CoA carboxylase/0.454
3dndLL2cAMP-dependent protein kinase catalytic subunit alpha2.7.11.110.454
4l4fCAMCamphor 5-monooxygenase1.14.15.10.454
4cdmFO1Deoxyribodipyrimidine photolyase/0.453
1kl2FONSerine hydroxymethyltransferase/0.452
4k4p3TLGag-Pol polyprotein/0.452
5e92ANPTGF-beta receptor type-22.7.11.300.452
1e8xATPPhosphatidylinositol 4,5-bisphosphate 3-kinase catalytic subunit gamma isoform2.7.1.1530.451
1fej2NCGag-Pol polyprotein3.4.23.160.451
2gpvOHTEstrogen-related receptor gamma/0.451
4anuEM7Phosphatidylinositol 4,5-bisphosphate 3-kinase catalytic subunit gamma isoform2.7.1.1530.451
1h1pCMGCyclin-dependent kinase 22.7.11.220.450
2e9n76ASerine/threonine-protein kinase Chk12.7.11.10.450
4j16NADNAD/NADP transhydrogenase alpha subunit 1/0.450
4lb2DM5Serum albumin/0.450
1ec3MS3Gag-Pol polyprotein3.4.23.160.449
1k8y13PTryptophan synthase alpha chain/0.449
2a9z26AAdenosine kinase2.7.1.200.449
2hs2017Protease/0.449
3lfm3DTAlpha-ketoglutarate-dependent dioxygenase FTO/0.449
4l455FIRibosomal protein S6 kinase beta-12.7.11.10.448
1j1bANPGlycogen synthase kinase-3 beta2.7.11.260.447
1q5kTMUGlycogen synthase kinase-3 beta2.7.11.260.447
1xh7R96cAMP-dependent protein kinase catalytic subunit alpha2.7.11.110.447
3is2FADVivid PAS protein VVD/0.447
3st5G89Gag-Pol polyprotein3.4.23.160.447
3uwqU5POrotidine 5'-phosphate decarboxylase/0.447
3vf7031Gag-Pol polyprotein3.4.23.160.446
1d4yTPVGag-Pol polyprotein3.4.23.160.445
1fvt106Cyclin-dependent kinase 22.7.11.220.445
1kfcIPLTryptophan synthase alpha chain/0.445
4l4eCAMCamphor 5-monooxygenase1.14.15.10.445
4njsG08Protease/0.445
4q1x017Gag-Pol polyprotein3.4.23.160.445
2e0aANP[Pyruvate dehydrogenase (acetyl-transferring)] kinase isozyme 4, mitochondrial2.7.11.20.444
3sa9A68Protease/0.444
1a9mU0EGag-Pol polyprotein/0.443
1bcpATPPertussis toxin subunit 4/0.443
1bcpATPPertussis toxin subunit 5/0.443
2cduFADNADH oxidase/0.443
2fdd385Pol protein/0.443
2qw034Z4-chlorobenzoyl CoA ligase/0.443
2z7hGG3Geranylgeranyl pyrophosphate synthase/0.443
3ddqRRCCyclin-dependent kinase 22.7.11.220.443
3m6iNADL-arabinitol 4-dehydrogenase1.1.1.120.443
1hnvTBOGag-Pol polyprotein2.7.7.490.442
1pxpCK8Cyclin-dependent kinase 22.7.11.220.442
2ep7NADGlyceraldehyde-3-phosphate dehydrogenase/0.442
2vtlLZ5Cyclin-dependent kinase 22.7.11.220.442
2x7hPFNProstaglandin reductase 310.442
3junAJDPhenazine biosynthesis protein A/B/0.442
3nu9478Gag-Pol polyprotein3.4.23.160.442
5jjrSAHGenome polyprotein/0.442
1ojtFADDihydrolipoyl dehydrogenase/0.441
1qbsDMPGag-Pol polyprotein3.4.23.160.441
2b0m201Dihydroorotate dehydrogenase (quinone), mitochondrial1.3.5.20.441
2xvv9DNSerum albumin/0.441
3fr28CAFatty acid-binding protein, adipocyte/0.441
3nnuEDBMitogen-activated protein kinase 14/0.441
3stxBKAMethylketone synthase I/0.441
3ujlA8SAbscisic acid receptor PYL2/0.441
4acg6LQGlycogen synthase kinase-3 beta2.7.11.260.441
1hiiC20Gag-Pol polyprotein/0.440
2brbPFQSerine/threonine-protein kinase Chk12.7.11.10.440
2qenADPWalker-Type ATPase/0.440
3ambVX6cAMP-dependent protein kinase catalytic subunit alpha2.7.11.110.440
3fx5KNIGag-Pol polyprotein3.4.23.160.440
3negPYVAbscisic acid receptor PYL1/0.440
3rpr25ZCyclin-dependent kinase 22.7.11.220.440
4egh0OYHeat shock protein HSP 90-alpha/0.440
4xdmGDMHeat shock cognate 90 kDa protein/0.440