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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
3qdzPRO_ALA_PRO_ARGProthrombin3.4.21.5

Complex with similar cavities

PDB ID HET Uniprot Name EC Number Cavity
Similarity		 Align
3qdzPRO_ALA_PRO_ARGProthrombin3.4.21.51.000
5cmx0G6Prothrombin3.4.21.50.604
1jwtBLIProthrombin3.4.21.50.586
1nzq162Prothrombin3.4.21.50.580
1gj5130Prothrombin3.4.21.50.558
2jh0701Prothrombin3.4.21.50.558
2cf8ESHProthrombin3.4.21.50.549
2bvs2CEProthrombin3.4.21.50.548
4hfp15UProthrombin3.4.21.50.548
1ta6177Prothrombin3.4.21.50.547
1ypeUIPProthrombin3.4.21.50.542
1d3pBT3Prothrombin3.4.21.50.541
2zc922UProthrombin3.4.21.50.541
1d4pBPPProthrombin3.4.21.50.540
1o2g696Prothrombin3.4.21.50.538
3c1kT15Prothrombin3.4.21.50.535
4ax9N5NProthrombin3.4.21.50.535
1nm6L86Prothrombin3.4.21.50.534
1t4u81AProthrombin3.4.21.50.533
1t4v14AProthrombin3.4.21.50.529
2anmCDOProthrombin3.4.21.50.529
2cn0F25Prothrombin3.4.21.50.528
1mu6CDAProthrombin3.4.21.50.527
1yplRA8Prothrombin3.4.21.50.527
2cf9348Prothrombin3.4.21.50.527
1bcuPRLProthrombin3.4.21.50.526
1ypgUIRProthrombin3.4.21.50.526
1c4uIH1Prothrombin3.4.21.50.525
2jh6894Prothrombin3.4.21.50.525
3qwc98PProthrombin3.4.21.50.525
1riwOSCProthrombin3.4.21.50.524
1d3dBZTProthrombin3.4.21.50.522
1z71L17Prothrombin3.4.21.50.521
3hatGLY_VAL_ARG_RNGProthrombin3.4.21.50.521
1o5gCR9Prothrombin3.4.21.50.520
1oytFSNProthrombin3.4.21.50.519
2jh5895Prothrombin3.4.21.50.519
1d6w00RProthrombin3.4.21.50.518
2r2mI50Prothrombin3.4.21.50.517
2zhe13UProthrombin3.4.21.50.517
4e7r0NWProthrombin3.4.21.50.512
4n3l2FNProthrombin3.4.21.50.510
1d9i00PProthrombin3.4.21.50.509
4ayy9MXProthrombin3.4.21.50.509
1umaIN2Prothrombin3.4.21.50.508
2zda32UProthrombin3.4.21.50.507
2zi224UProthrombin3.4.21.50.506
4az29MUProthrombin3.4.21.50.504
2v3oI26Prothrombin3.4.21.50.503
1ypjUIBProthrombin3.4.21.50.502
2zfr46UProthrombin3.4.21.50.501
1xm1GAHProthrombin3.4.21.50.499
4lxb7R9Prothrombin3.4.21.50.495
2gdeSN3Prothrombin3.4.21.50.494
1c4yIH3Prothrombin3.4.21.50.493
2zhf49UProthrombin3.4.21.50.493
2uuk897Prothrombin3.4.21.50.492
3qtv06PProthrombin3.4.21.50.492
1ypmRA4Prothrombin3.4.21.50.491
1zgv501Prothrombin3.4.21.50.491
2bdyUNBProthrombin3.4.21.50.490
4ayv9MQProthrombin3.4.21.50.490
4rn615UProthrombin3.4.21.50.490
3dhk23UProthrombin3.4.21.50.481
1k21IGNProthrombin3.4.21.50.480
2zfq45UProthrombin3.4.21.50.480
1ghv120Prothrombin3.4.21.50.479
1w7gMIUProthrombin3.4.21.50.476
1sb1165Prothrombin3.4.21.50.470
1zgi382Prothrombin3.4.21.50.469
1mu8CDBProthrombin3.4.21.50.466
1c4vIH2Prothrombin3.4.21.50.464
1k22MELProthrombin3.4.21.50.463
4baoMVFProthrombin3.4.21.50.463
1ypkCCRProthrombin3.4.21.50.462
2a2xNA9Prothrombin3.4.21.50.462
3p1799PProthrombin3.4.21.50.462
1a4wQWEProthrombin3.4.21.50.461
1gj4132Prothrombin3.4.21.50.461
2zhq27UProthrombin3.4.21.50.459
3egkM18Prothrombin3.4.21.50.459
1mueCDDProthrombin3.4.21.50.458
1uvsI11Prothrombin3.4.21.50.458
1ae8AZLProthrombin3.4.21.50.450
1afeALZProthrombin3.4.21.50.450
3qto10PProthrombin3.4.21.50.448
5dp2NAPCurF/0.446
1c1wBAHProthrombin3.4.21.50.442
2prbCOAAminoglycoside 6-N-acetyltransferase type Ib11/0.442
2zgx29UProthrombin3.4.21.50.440