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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
2o1vADPEndoplasmin

Complex with similar cavities

PDB ID HET Uniprot Name EC Number Cavity
Similarity		 Align
2o1vADPEndoplasmin/1.000
4ipeANPTNF receptor-associated protein 1/0.597
2qg0A94Heat shock protein HSP 90-alpha/0.590
2xcmADPCytosolic heat shock protein 90/0.585
4ivgANPTNF receptor-associated protein 1/0.583
2yegXQGHeat shock protein HSP 90-alpha/0.580
2o1uANPEndoplasmin/0.576
4xcjADPHeat shock cognate 90 kDa protein/0.573
3k974CDHeat shock protein HSP 90-alpha/0.563
1yetGDMHeat shock protein HSP 90-alpha/0.562
1yc14BCHeat shock protein HSP 90-alpha/0.561
3t10ACPHeat shock protein HSP 90-alpha/0.559
2yefANPHeat shock protein HSP 90-alpha/0.555
3rlq3RQHeat shock protein HSP 90-alpha/0.555
4ce17FKATP-dependent molecular chaperone HSP82/0.543
2xk2ADPHeat shock protein HSP 90-alpha/0.539
1yc34BCHeat shock protein HSP 90-alpha/0.538
2byh2D7Heat shock protein HSP 90-alpha/0.538
2yeiXQIHeat shock protein HSP 90-alpha/0.538
3hyz42CHeat shock protein HSP 90-alpha/0.538
4egkRDCHeat shock protein HSP 90-alpha/0.537
2byi2DDHeat shock protein HSP 90-alpha/0.536
2xhrC0PHeat shock protein HSP 90-alpha/0.536
3d0bSNXHeat shock protein HSP 90-alpha/0.535
3t0zATPHeat shock protein HSP 90-alpha/0.534
4xclAGSHeat shock cognate 90 kDa protein/0.534
2wi5ZZ5Heat shock protein HSP 90-alpha/0.532
1uykPUXHeat shock protein HSP 90-alpha/0.531
2xhtC0YHeat shock protein HSP 90-alpha/0.531
4b7p9UNHeat shock protein HSP 90-alpha/0.531
2bt0CT5Heat shock protein HSP 90-alpha/0.529
2bz5AB4Heat shock protein HSP 90-alpha/0.529
1osfKOSHeat shock protein HSP 90-alpha/0.527
1yc443PHeat shock protein HSP 90-alpha/0.527
3vhaVHAHeat shock protein HSP 90-alpha/0.527
4jqlVJ6Heat shock protein HSP 90-alpha/0.526
4xdmGDMHeat shock cognate 90 kDa protein/0.523
2ye42FYHeat shock protein HSP 90-alpha/0.522
1amwADPATP-dependent molecular chaperone HSP82/0.521
3k99PFTHeat shock protein HSP 90-alpha/0.521
1u2oNECEndoplasmin/0.518
1qy8RDIEndoplasmin/0.517
4fcr0TMHeat shock protein HSP 90-alpha/0.517
2xabVHDHeat shock protein HSP 90-alpha/0.515
2vci2GJHeat shock protein HSP 90-alpha/0.514
4egh0OYHeat shock protein HSP 90-alpha/0.514
2breKJ2ATP-dependent molecular chaperone HSP82/0.513
2fxsRDAATP-dependent molecular chaperone HSP82/0.513
3r4pFU7Heat shock protein HSP 90-alpha/0.513
3t2sAGSHeat shock protein HSP 90-alpha/0.513
5f5rANPHeat shock protein 75 kDa, mitochondrial/0.512
2iwuNP5ATP-dependent molecular chaperone HSP82/0.508
1byqADPHeat shock protein HSP 90-alpha/0.506
2yecXQ0Heat shock protein HSP 90-alpha/0.505
4gqtADPHeat shock protein 90/0.505
2fwyH64Heat shock protein HSP 90-alpha/0.504
2uwd2GGHeat shock protein HSP 90-alpha/0.503
3t1kANPHeat shock protein HSP 90-alpha/0.502
2yejXQKHeat shock protein HSP 90-alpha/0.500
2yejZZ3Heat shock protein HSP 90-alpha/0.500
2bsmBSMHeat shock protein HSP 90-alpha/0.499
3pehIBDEndoplasmin homolog, putative/0.498
3whaWHAHeat shock protein HSP 90-alpha/0.496
1uy8PU5Heat shock protein HSP 90-alpha/0.495
2yi66QMHeat shock protein HSP 90-alpha/0.495
2ye92D4Heat shock protein HSP 90-alpha/0.492
4egiB2JHeat shock protein HSP 90-alpha/0.492
2esaGDMEndoplasmin/0.491
2iorADPChaperone protein HtpG/0.489
1yt0ADPEndoplasmin/0.488
2gqpPA7Endoplasmin/0.486
2yee2ECHeat shock protein HSP 90-alpha/0.485
1bgqRDCATP-dependent molecular chaperone HSP82/0.482
2wi1ZZ2Heat shock protein HSP 90-alpha/0.482
4eftEFTHeat shock protein HSP 90-alpha/0.480
1d7yFADFerredoxin reductase/0.479
3o0iP54Heat shock protein HSP 90-alpha/0.479
2vcj2EQHeat shock protein HSP 90-alpha/0.476
3r4oFU3Heat shock protein HSP 90-alpha/0.476
4nmdFDABifunctional protein PutA/0.475
2yjwYJWHeat shock protein HSP 90-alpha/0.474
1uy7PU4Heat shock protein HSP 90-alpha/0.473
1j39UPGDNA beta-glucosyltransferase/0.472
4asf62UATP-dependent molecular chaperone HSP82/0.472
3iedAN2HSP90/0.470
2wi6ZZ6Heat shock protein HSP 90-alpha/0.468
3rlp3RPHeat shock protein HSP 90-alpha/0.468
4bqg50QHeat shock protein HSP 90-alpha/0.468
2xjjL81Heat shock protein HSP 90-alpha/0.467
4asg814ATP-dependent molecular chaperone HSP82/0.467
1g6cIFPThiamine-phosphate synthase/0.466
2yi7BZ8Heat shock protein HSP 90-alpha/0.466
4dpuAGSMevalonate diphosphate decarboxylase/0.466
5e8wSTUTGF-beta receptor type-12.7.11.300.466
4hy6FJ1Heat shock protein HSP 90-alpha/0.464
4as94QSATP-dependent molecular chaperone HSP82/0.463
2xd6XD6ATP-dependent molecular chaperone HSP82/0.462
4yswFADXanthine dehydrogenase/oxidase/0.462
2py3ACPFibroblast growth factor receptor 2/0.461
4j03FVSBifunctional epoxide hydrolase 23.1.3.760.460
2yxuATPPyridoxal kinase2.7.1.350.459
3inxJZCHeat shock protein HSP 90-alpha/0.459
3hz142CHeat shock protein HSP 90-alpha/0.458
2c31TZDOxalyl-CoA decarboxylase4.1.1.80.457
2xhxT5MHeat shock protein HSP 90-alpha/0.456
4j97ACPFibroblast growth factor receptor 2/0.456
2cct2E1Heat shock protein HSP 90-alpha/0.455
1e5qNDPSaccharopine dehydrogenase [NADP(+), L-glutamate-forming]1.5.1.100.454
3lsiFADPyranose 2-oxidase/0.454
4r20AERCytochrome P450 family 17 polypeptide 2/0.454
5hes032Mitogen-activated protein kinase kinase kinase 202.7.11.250.453
1e90MYCPhosphatidylinositol 4,5-bisphosphate 3-kinase catalytic subunit gamma isoform2.7.1.1530.452
2wi2ZZ3Heat shock protein HSP 90-alpha/0.452
3opdHIEHeat shock protein 83/0.452
4pd6URINucleoside permease/0.452
1g4tFTPThiamine-phosphate synthase/0.451
1nvsUCMSerine/threonine-protein kinase Chk12.7.11.10.451
3ft8MOJHeat shock protein HSP 90-alpha/0.451
1uu3LY43-phosphoinositide-dependent protein kinase 12.7.11.10.450
1ytmATPPhosphoenolpyruvate carboxykinase (ATP)/0.450
2ccu2D9Heat shock protein HSP 90-alpha/0.450
2cgw3C3Serine/threonine-protein kinase Chk12.7.11.10.450
2qo9ANPEphrin type-A receptor 32.7.10.10.450
4dquNAIEnoyl-[acyl-carrier-protein] reductase [NADH]1.3.1.90.450
4fsrHKCSerine/threonine-protein kinase Chk12.7.11.10.450
4g2fC07Ephrin type-A receptor 32.7.10.10.450
2gfdRDAEndoplasmin/0.449
2werRDCATP-dependent molecular chaperone HSP82/0.449
1njfAGSDNA polymerase III subunit tau2.7.7.70.448
2rghFADAlpha-Glycerophosphate Oxidase/0.448
3qdd94MHeat shock protein HSP 90-alpha/0.448
4awq592Heat shock protein HSP 90-alpha/0.448
2bpoNAPNADPH--cytochrome P450 reductase/0.447
3o3pGDDGlycosyl transferase, family 2/0.447
3sjzGNPTranslation initiation factor 2 subunit gamma/0.447
3vt8YI3Vitamin D3 receptor/0.447
1fnnADPORC1-type DNA replication protein/0.446
1me7RVPInosine-5'-monophosphate dehydrogenase/0.446
1nlmUD1UDP-N-acetylglucosamine--N-acetylmuramyl-(pentapeptide) pyrophosphoryl-undecaprenol N-acetylglucosamine transferase/0.446
1uyiPUZHeat shock protein HSP 90-alpha/0.446
2hxl422Serine/threonine-protein kinase Chk12.7.11.10.446
2wi72KLHeat shock protein HSP 90-alpha/0.446
3ac3KSHTyrosine-protein kinase Lck2.7.10.20.446
3hwxTPP2-succinyl-5-enolpyruvyl-6-hydroxy-3-cyclohexene-1-carboxylate synthase/0.446
3keuATPPyridoxal kinase2.7.1.350.446
4aw0ATP3-phosphoinositide-dependent protein kinase 12.7.11.10.446
4gk3L87Ephrin type-A receptor 32.7.10.10.446
4z34ON7Lysophosphatidic acid receptor 1/0.446
1g67TZPThiamine-phosphate synthase/0.445
1n3rGTPGTP cyclohydrolase 13.5.4.160.445
1zxnADPDNA topoisomerase 2-alpha5.99.1.30.445
2panFADGlyoxylate carboligase4.1.1.470.445
2zva1N1Tyrosine-protein kinase Lyn2.7.10.20.445
3d2rADP[Pyruvate dehydrogenase (acetyl-transferring)] kinase isozyme 4, mitochondrial2.7.11.20.445
3f0gC5P2-C-methyl-D-erythritol 2,4-cyclodiphosphate synthase/0.445
3w1tWRODihydroorotate dehydrogenase (fumarate)1.3.98.10.445
4awp99AHeat shock protein HSP 90-alpha/0.445
4f9fGDPPutative glycosyltransferase/0.445
2e0aANP[Pyruvate dehydrogenase (acetyl-transferring)] kinase isozyme 4, mitochondrial2.7.11.20.444
2givACOHistone acetyltransferase KAT8/0.444
2xx413IATP-dependent molecular chaperone HSP82/0.444
3gcuR48Mitogen-activated protein kinase 14/0.444
3pcfFHBProtocatechuate 3,4-dioxygenase beta chain1.13.11.30.444
1db56INPhospholipase A2, membrane associated/0.443
1fwkADPHomoserine kinase2.7.1.390.443
2pdtFADVivid PAS protein VVD/0.443
2z3uCRRCytochrome P450/0.443
3ictADPCoenzyme A disulfide reductase/0.443
3inwJZBHeat shock protein HSP 90-alpha/0.443
3qd33Q53-phosphoinositide-dependent protein kinase 12.7.11.10.443
3triNAPPyrroline-5-carboxylate reductase/0.443
4xb2NDP319aa long hypothetical homoserine dehydrogenase/0.443
1me7MOAInosine-5'-monophosphate dehydrogenase/0.442
3e9hKAALysine--tRNA ligase6.1.1.60.442
3t8wDGZM17 leucyl aminopeptidase/0.442
1g1lDAUGlucose-1-phosphate thymidylyltransferase/0.441
2cgfP2NATP-dependent molecular chaperone HSP82/0.441
2hg1N5OEndoplasmin/0.441
2oxiNADAlcohol dehydrogenase E chain1.1.1.10.441
3l0lHC3Nuclear receptor ROR-gamma/0.441
1oiuN76Cyclin-dependent kinase 22.7.11.220.440
1zw1TN5Enoyl-ACP reductase/0.440
2ch6ADPN-acetyl-D-glucosamine kinase2.7.1.590.440
2jlcTPP2-succinyl-5-enolpyruvyl-6-hydroxy-3-cyclohexene-1-carboxylate synthase/0.440
2pa3NAID-3-phosphoglycerate dehydrogenase1.1.1.950.440
2xa4AZ5Tyrosine-protein kinase JAK2/0.440
4fuyEK2Mitogen-activated protein kinase 12.7.11.240.440
4h8nNDPNADPH-dependent conjugated polyketone reductase C2/0.440
4nm7ADPGlycogen synthase kinase-3 beta2.7.11.260.440
4u03GTPCyclic GMP-AMP synthase/0.440