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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
2jh5895Prothrombin3.4.21.5

Complex with similar binding sites

PDB ID HET Uniprot Name EC Number Binding Site
Similarity		 Align
2jh5895Prothrombin3.4.21.51.000
2jh6894Prothrombin3.4.21.50.738
2r2mI50Prothrombin3.4.21.50.677
1yplRA8Prothrombin3.4.21.50.667
1ypeUIPProthrombin3.4.21.50.664
1d4pBPPProthrombin3.4.21.50.658
1sb1165Prothrombin3.4.21.50.655
3c1kT15Prothrombin3.4.21.50.650
2jh0701Prothrombin3.4.21.50.648
2uuk897Prothrombin3.4.21.50.642
1z71L17Prothrombin3.4.21.50.640
1t4u81AProthrombin3.4.21.50.637
1ta6177Prothrombin3.4.21.50.637
2v3oI26Prothrombin3.4.21.50.636
1d3pBT3Prothrombin3.4.21.50.634
1mu6CDAProthrombin3.4.21.50.631
2bdyUNBProthrombin3.4.21.50.631
2bvs2CEProthrombin3.4.21.50.630
2gdeSN3Prothrombin3.4.21.50.630
2zhf49UProthrombin3.4.21.50.630
2zfq45UProthrombin3.4.21.50.629
4ax9N5NProthrombin3.4.21.50.629
2zi224UProthrombin3.4.21.50.627
1d3dBZTProthrombin3.4.21.50.626
1xm1GAHProthrombin3.4.21.50.625
1ypgUIRProthrombin3.4.21.50.623
1nm6L86Prothrombin3.4.21.50.622
1t4v14AProthrombin3.4.21.50.622
1zgv501Prothrombin3.4.21.50.620
4az29MUProthrombin3.4.21.50.619
2zfr46UProthrombin3.4.21.50.616
1ypmRA4Prothrombin3.4.21.50.614
2anmCDOProthrombin3.4.21.50.614
4ayy9MXProthrombin3.4.21.50.612
2zda32UProthrombin3.4.21.50.610
1ypjUIBProthrombin3.4.21.50.609
1ypkCCRProthrombin3.4.21.50.609
2cf8ESHProthrombin3.4.21.50.607
4lxb7R9Prothrombin3.4.21.50.602
1c4uIH1Prothrombin3.4.21.50.600
3qwc98PProthrombin3.4.21.50.599
2cf9348Prothrombin3.4.21.50.598
1d6w00RProthrombin3.4.21.50.597
2zhq27UProthrombin3.4.21.50.597
3hatGLY_VAL_ARG_RNGProthrombin3.4.21.50.596
1zgi382Prothrombin3.4.21.50.591
2zhe13UProthrombin3.4.21.50.591
2zc922UProthrombin3.4.21.50.588
1oytFSNProthrombin3.4.21.50.587
1d9i00PProthrombin3.4.21.50.586
1nzq162Prothrombin3.4.21.50.583
2cn0F25Prothrombin3.4.21.50.580
1ae8AZLProthrombin3.4.21.50.579
2zgx29UProthrombin3.4.21.50.579
1mueCDDProthrombin3.4.21.50.578
4e7r0NWProthrombin3.4.21.50.578
1jwtBLIProthrombin3.4.21.50.577
3biu10UProthrombin3.4.21.50.577
2zdv37UProthrombin3.4.21.50.575
1c4yIH3Prothrombin3.4.21.50.573
1k21IGNProthrombin3.4.21.50.572
2znk31UProthrombin3.4.21.50.570
1riwOSCProthrombin3.4.21.50.569
2zg050UProthrombin3.4.21.50.569
1afeALZProthrombin3.4.21.50.566
2zfp19UProthrombin3.4.21.50.566
7kmeACE_0BN_CHG_PRRProthrombin3.4.21.50.566
1a4wQWEProthrombin3.4.21.50.564
3eq02TSProthrombin3.4.21.50.564
4ayv9MQProthrombin3.4.21.50.564
4n3l2FNProthrombin3.4.21.50.563
1zrb062Prothrombin3.4.21.50.561
2zff53UProthrombin3.4.21.50.559
2zf051UProthrombin3.4.21.50.550
2zhw12UProthrombin3.4.21.50.549
3dux64UProthrombin3.4.21.50.546
4bamMM9Prothrombin3.4.21.50.546
2zgb21UProthrombin3.4.21.50.544
1k22MELProthrombin3.4.21.50.543
2v3hI25Prothrombin3.4.21.50.534
2pksG44Prothrombin3.4.21.50.533
2uuj896Prothrombin3.4.21.50.529
3dhk23UProthrombin3.4.21.50.524
1w7gMIUProthrombin3.4.21.50.522
4bakM67Prothrombin3.4.21.50.519
1vzqSHYProthrombin3.4.21.50.518
1mu8CDBProthrombin3.4.21.50.516
4bahMELProthrombin3.4.21.50.515
1c4vIH2Prothrombin3.4.21.50.514
3p1799PProthrombin3.4.21.50.513
3qto10PProthrombin3.4.21.50.512
1uvsI11Prothrombin3.4.21.50.510
2ziq26UProthrombin3.4.21.50.503
4hfp15UProthrombin3.4.21.50.502
2bxtC2DProthrombin3.4.21.50.500
5cmx0G6Prothrombin3.4.21.50.500
4baqM4ZProthrombin3.4.21.50.498
3biv11UProthrombin3.4.21.50.495
4baoMVFProthrombin3.4.21.50.495
4banM6SProthrombin3.4.21.50.490
4k8s1QTBeta-secretase 13.4.23.460.488
1umaIN2Prothrombin3.4.21.50.485
3c27DKKProthrombin3.4.21.50.485
1ghv120Prothrombin3.4.21.50.482
3qdzPRO_ALA_PRO_ARGProthrombin3.4.21.50.476
3utu1TSProthrombin3.4.21.50.474
3qtv06PProthrombin3.4.21.50.470
1bcuPRLProthrombin3.4.21.50.466
1ta2176Prothrombin3.4.21.50.465
1gj4132Prothrombin3.4.21.50.464
3egkM18Prothrombin3.4.21.50.463
4q71FADBifunctional protein PutA/0.454
2a2xNA9Prothrombin3.4.21.50.451
4kbyC2EStimulator of interferon genes protein/0.451
2fapRADPeptidyl-prolyl cis-trans isomerase FKBP1A5.2.1.80.449
2fapRADSerine/threonine-protein kinase mTOR2.7.11.10.449
1ny2ARG_PRO_PRO_GLYProthrombin3.4.21.50.445
4bbyFADAlkyldihydroxyacetonephosphate synthase, peroxisomal2.5.1.260.444
1o0d163Prothrombin3.4.21.50.443
2wf3ZY3Beta-secretase 13.4.23.460.443
1ktsC24Prothrombin3.4.21.50.442
4loy6XSProthrombin3.4.21.50.441
4a862ANMajor pollen allergen Bet v 1-A/0.440
4e907RGHigh affinity cGMP-specific 3',5'-cyclic phosphodiesterase 9A/0.440