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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
1o5gCR9Prothrombin3.4.21.5

Complex with similar binding sites

PDB ID HET Uniprot Name EC Number Binding Site
Similarity		 Align
1o5gCR9Prothrombin3.4.21.51.000
1gj5130Prothrombin3.4.21.50.715
1o2g696Prothrombin3.4.21.50.680
1gj4132Prothrombin3.4.21.50.592
4e7r0NWProthrombin3.4.21.50.570
4hfp15UProthrombin3.4.21.50.547
2cf9348Prothrombin3.4.21.50.546
2cn0F25Prothrombin3.4.21.50.522
1ypgUIRProthrombin3.4.21.50.521
2bvs2CEProthrombin3.4.21.50.516
1d3pBT3Prothrombin3.4.21.50.514
1xm1GAHProthrombin3.4.21.50.511
4ayv9MQProthrombin3.4.21.50.509
1oytFSNProthrombin3.4.21.50.506
2v3oI26Prothrombin3.4.21.50.506
3hatGLY_VAL_ARG_RNGProthrombin3.4.21.50.506
1ypjUIBProthrombin3.4.21.50.503
1zsk421Coagulation factor XI3.4.21.270.501
4loy6XSProthrombin3.4.21.50.501
4lxb7R9Prothrombin3.4.21.50.499
1mu8CDBProthrombin3.4.21.50.497
2gdeSN3Prothrombin3.4.21.50.497
4ayy9MXProthrombin3.4.21.50.493
1c4vIH2Prothrombin3.4.21.50.491
4fue7UPUrokinase-type plasminogen activator3.4.21.730.491
2a2xNA9Prothrombin3.4.21.50.490
2vivVG2Urokinase-type plasminogen activator3.4.21.730.489
1ypeUIPProthrombin3.4.21.50.482
2jh6894Prothrombin3.4.21.50.482
2jh0701Prothrombin3.4.21.50.477
1uvsI11Prothrombin3.4.21.50.476
2ifaFMNUncharacterized protein/0.473
4xguADPPutative pachytene checkpoint protein 2/0.470
2zhf49UProthrombin3.4.21.50.467
1ghv120Prothrombin3.4.21.50.464
3ig6438Urokinase-type plasminogen activator3.4.21.730.463
3wagTYDGlycosyltransferase/0.460
4j7gTRHPCZA361.3/0.460
2il2LIXRenin3.4.23.150.459
4gh6LUOHigh affinity cGMP-specific 3',5'-cyclic phosphodiesterase 9A/0.459
1riwOSCProthrombin3.4.21.50.458
2ivnANPtRNA N6-adenosine threonylcarbamoyltransferase/0.458
1bim0QBRenin3.4.23.150.457
2pswCOAN-alpha-acetyltransferase 50/0.457
3k3hBYEHigh affinity cGMP-specific 3',5'-cyclic phosphodiesterase 9A/0.457
2ziq26UProthrombin3.4.21.50.456
1pqc444Oxysterols receptor LXR-beta/0.455
4j7hTRHPCZA361.3/0.455
3k5c0BIBeta-secretase 13.4.23.460.454
4g2l0WLHigh affinity cGMP-specific 3',5'-cyclic phosphodiesterase 9A/0.454
4uugPXGBranched-chain amino acid aminotransferase, putative/0.454
1d9i00PProthrombin3.4.21.50.453
2pr2DG1Enoyl-[acyl-carrier-protein] reductase [NADH]1.3.1.90.453
4a312CBGlycylpeptide N-tetradecanoyltransferase/0.453
2x7hPFNProstaglandin reductase 310.452
2yy2IBMHigh affinity cGMP-specific 3',5'-cyclic phosphodiesterase 9A/0.452
4e907RGHigh affinity cGMP-specific 3',5'-cyclic phosphodiesterase 9A/0.452
4jsr1NQNAD-dependent protein deacetylase sirtuin-3, mitochondrial3.5.10.452
5dp2NAPCurF/0.451
1kbo340NAD(P)H dehydrogenase [quinone] 11.6.5.20.450
3vydVYDRenin3.4.23.150.449
1ex75GPGuanylate kinase2.7.4.80.448
1obnASVIsopenicillin N synthase1.21.3.10.448
2qimZEAClass 10 plant pathogenesis-related protein/0.448
2xluNA7Putative flavin-containing monooxygenase/0.448
3d91REMRenin3.4.23.150.448
3oqfS51Renin3.4.23.150.448
4oztP1AEcdysone receptor, putative/0.448
1w7gMIUProthrombin3.4.21.50.447
3vsxR32Renin3.4.23.150.447
4g2j0WFHigh affinity cGMP-specific 3',5'-cyclic phosphodiesterase 9A/0.447
2hizLIJBeta-secretase 13.4.23.460.446
3vswR31Renin3.4.23.150.446
3hl0NADMaleylacetate reductase/0.445
4driRAPSerine/threonine-protein kinase mTOR2.7.11.10.445
4driRAPPeptidyl-prolyl cis-trans isomerase FKBP55.2.1.80.445
3egkM18Prothrombin3.4.21.50.444
3jsiWTCHigh affinity cGMP-specific 3',5'-cyclic phosphodiesterase 9A/0.444
4g1cCNANAD-dependent protein deacylase sirtuin-5, mitochondrial/0.444
1ps9MDE2,4-dienoyl-CoA reductase1.3.1.340.443
3up5FAD2-oxo-Delta(3)-4,5,5-trimethylcyclopentenylacetyl-CoA monooxygenase1.14.13.1600.443
4a84DXCMajor pollen allergen Bet v 1-A/0.443
2vbdV10Isopenicillin N synthase1.21.3.10.442
3dylPCGHigh affinity cGMP-specific 3',5'-cyclic phosphodiesterase 9A/0.442
5f8eSAHPossible transcriptional regulatory protein/0.442
1icqOPD12-oxophytodienoate reductase 11.3.1.420.440
1vceSAHDiphthine synthase/0.440
3dopNAP3-oxo-5-beta-steroid 4-dehydrogenase/0.440
3e34ED1Protein farnesyltransferase/geranylgeranyltransferase type-1 subunit alpha/0.440
3e34ED1Protein farnesyltransferase subunit beta2.5.1.580.440
4kbyC2EStimulator of interferon genes protein/0.440