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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
1afeALZProthrombin3.4.21.5

Complex with similar binding sites

PDB ID HET Uniprot Name EC Number Binding Site
Similarity		 Align
1afeALZProthrombin3.4.21.51.000
1ae8AZLProthrombin3.4.21.50.804
1mueCDDProthrombin3.4.21.50.698
1k21IGNProthrombin3.4.21.50.689
1vzqSHYProthrombin3.4.21.50.687
2zgx29UProthrombin3.4.21.50.680
1d6w00RProthrombin3.4.21.50.670
1ypgUIRProthrombin3.4.21.50.670
1t4u81AProthrombin3.4.21.50.664
2zfq45UProthrombin3.4.21.50.663
2zi224UProthrombin3.4.21.50.660
1zrb062Prothrombin3.4.21.50.657
3biu10UProthrombin3.4.21.50.657
1mu6CDAProthrombin3.4.21.50.655
1zgi382Prothrombin3.4.21.50.655
4bakM67Prothrombin3.4.21.50.654
3dux64UProthrombin3.4.21.50.652
1oytFSNProthrombin3.4.21.50.651
2znk31UProthrombin3.4.21.50.651
2zfr46UProthrombin3.4.21.50.649
3eq02TSProthrombin3.4.21.50.649
1ta6177Prothrombin3.4.21.50.648
2zc922UProthrombin3.4.21.50.648
1d4pBPPProthrombin3.4.21.50.644
7kmeACE_0BN_CHG_PRRProthrombin3.4.21.50.641
1t4v14AProthrombin3.4.21.50.639
2zhf49UProthrombin3.4.21.50.638
2zf051UProthrombin3.4.21.50.636
2zda32UProthrombin3.4.21.50.635
1z71L17Prothrombin3.4.21.50.634
1zgv501Prothrombin3.4.21.50.632
3c1kT15Prothrombin3.4.21.50.631
4bamMM9Prothrombin3.4.21.50.631
1nzq162Prothrombin3.4.21.50.626
4ayy9MXProthrombin3.4.21.50.626
2zdv37UProthrombin3.4.21.50.625
2zg050UProthrombin3.4.21.50.624
1jwtBLIProthrombin3.4.21.50.623
1yplRA8Prothrombin3.4.21.50.623
2v3oI26Prothrombin3.4.21.50.622
4az29MUProthrombin3.4.21.50.622
2zhe13UProthrombin3.4.21.50.620
2anmCDOProthrombin3.4.21.50.619
2jh5895Prothrombin3.4.21.50.619
2r2mI50Prothrombin3.4.21.50.615
1ypeUIPProthrombin3.4.21.50.614
2cf9348Prothrombin3.4.21.50.612
2cn0F25Prothrombin3.4.21.50.612
2jh6894Prothrombin3.4.21.50.612
2zgb21UProthrombin3.4.21.50.611
1c4yIH3Prothrombin3.4.21.50.609
1ypjUIBProthrombin3.4.21.50.604
1ypkCCRProthrombin3.4.21.50.604
4banM6SProthrombin3.4.21.50.603
1sb1165Prothrombin3.4.21.50.602
4baqM4ZProthrombin3.4.21.50.599
1d9i00PProthrombin3.4.21.50.598
2gdeSN3Prothrombin3.4.21.50.598
3hatGLY_VAL_ARG_RNGProthrombin3.4.21.50.598
1d3dBZTProthrombin3.4.21.50.596
1a4wQWEProthrombin3.4.21.50.595
1xm1GAHProthrombin3.4.21.50.595
2zfp19UProthrombin3.4.21.50.595
2bvs2CEProthrombin3.4.21.50.592
2cf8ESHProthrombin3.4.21.50.591
2uuk897Prothrombin3.4.21.50.588
4e7r0NWProthrombin3.4.21.50.588
2zff53UProthrombin3.4.21.50.586
1c4uIH1Prothrombin3.4.21.50.585
1ypmRA4Prothrombin3.4.21.50.582
3qwc98PProthrombin3.4.21.50.582
2uuj896Prothrombin3.4.21.50.581
4ax9N5NProthrombin3.4.21.50.581
1nm6L86Prothrombin3.4.21.50.580
2zhw12UProthrombin3.4.21.50.579
4lxb7R9Prothrombin3.4.21.50.578
2pksG44Prothrombin3.4.21.50.576
2jh0701Prothrombin3.4.21.50.575
4baoMVFProthrombin3.4.21.50.575
1d3pBT3Prothrombin3.4.21.50.574
2zhq27UProthrombin3.4.21.50.574
2v3hI25Prothrombin3.4.21.50.568
4n3l2FNProthrombin3.4.21.50.564
1k22MELProthrombin3.4.21.50.562
4ayv9MQProthrombin3.4.21.50.562
2bxtC2DProthrombin3.4.21.50.550
5cmx0G6Prothrombin3.4.21.50.548
3c27DKKProthrombin3.4.21.50.545
2bdyUNBProthrombin3.4.21.50.544
4bahMELProthrombin3.4.21.50.544
3biv11UProthrombin3.4.21.50.539
3p1799PProthrombin3.4.21.50.537
4rn615UProthrombin3.4.21.50.537
1riwOSCProthrombin3.4.21.50.536
1w7gMIUProthrombin3.4.21.50.532
3dhk23UProthrombin3.4.21.50.529
3utu1TSProthrombin3.4.21.50.529
3qtv06PProthrombin3.4.21.50.517
2ziq26UProthrombin3.4.21.50.512
3qto10PProthrombin3.4.21.50.510
3qdzPRO_ALA_PRO_ARGProthrombin3.4.21.50.506
4hfp15UProthrombin3.4.21.50.505
1uvsI11Prothrombin3.4.21.50.500
1ta2176Prothrombin3.4.21.50.497
1ghv120Prothrombin3.4.21.50.496
1mu8CDBProthrombin3.4.21.50.496
4loy6XSProthrombin3.4.21.50.492
3f6891UProthrombin3.4.21.50.491
1ny2ARG_PRO_PRO_GLYProthrombin3.4.21.50.479
1umaIN2Prothrombin3.4.21.50.477
4gv4MEJPoly [ADP-ribose] polymerase 32.4.2.300.474
1o0d163Prothrombin3.4.21.50.472
1c1uBAIProthrombin3.4.21.50.467
3bg7FADPyranose 2-oxidase/0.465
3adaNADSubunit alpha of sarocosine oxidase/0.461
4gv08MEPoly [ADP-ribose] polymerase 32.4.2.300.461
2wf3ZY3Beta-secretase 13.4.23.460.460
1gj4132Prothrombin3.4.21.50.459
4f1l0RYPoly [ADP-ribose] polymerase 142.4.2.300.458
4kbyC2EStimulator of interferon genes protein/0.457
1c5nESIProthrombin3.4.21.50.456
2ignFADPyranose 2-oxidase/0.456
3egkM18Prothrombin3.4.21.50.456
2wf1ZY1Beta-secretase 13.4.23.460.453
2a2xNA9Prothrombin3.4.21.50.449
4bbyFADAlkyldihydroxyacetonephosphate synthase, peroxisomal2.5.1.260.447
1c4vIH2Prothrombin3.4.21.50.446
4k8s1QTBeta-secretase 13.4.23.460.446
2b8l5HABeta-secretase 13.4.23.460.445
3k1wBFXRenin3.4.23.150.445
3qgf46FGenome polyprotein2.7.7.480.444
2pzjNADPutative nucleotide sugar epimerase/ dehydratase/0.443
2xuiTZ5Acetylcholinesterase3.1.1.70.443
4e907RGHigh affinity cGMP-specific 3',5'-cyclic phosphodiesterase 9A/0.443
1c1wBAHProthrombin3.4.21.50.442
1xe65FPPlasmepsin-23.4.23.390.442
3ozd4CTS-methyl-5'-thioadenosine phosphorylase/0.442
4bc7FADAlkyldihydroxyacetonephosphate synthase, peroxisomal2.5.1.260.442
4gh6LUOHigh affinity cGMP-specific 3',5'-cyclic phosphodiesterase 9A/0.442
1pqc444Oxysterols receptor LXR-beta/0.440
2xpwOTCTetracycline repressor protein class D/0.440