Logo scPDB

sc-PDB

An Annotated Database of Druggable Binding Sites from the Protein DataBank

Logo CNRS Logo Unistra
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
4banM6SProthrombin3.4.21.5

Complex with similar binding sites

PDB ID HET Uniprot Name EC Number Binding Site
Similarity		 Align
4banM6SProthrombin3.4.21.51.000
4baqM4ZProthrombin3.4.21.50.943
4bamMM9Prothrombin3.4.21.50.869
4bakM67Prothrombin3.4.21.50.856
3eq02TSProthrombin3.4.21.50.766
2zgb21UProthrombin3.4.21.50.763
2znk31UProthrombin3.4.21.50.752
4baoMVFProthrombin3.4.21.50.746
7kmeACE_0BN_CHG_PRRProthrombin3.4.21.50.732
3dux64UProthrombin3.4.21.50.724
2zgx29UProthrombin3.4.21.50.707
2zc922UProthrombin3.4.21.50.704
2zdv37UProthrombin3.4.21.50.696
4bahMELProthrombin3.4.21.50.695
2zf051UProthrombin3.4.21.50.690
2zi224UProthrombin3.4.21.50.678
2zhe13UProthrombin3.4.21.50.675
1nzq162Prothrombin3.4.21.50.669
3hatGLY_VAL_ARG_RNGProthrombin3.4.21.50.668
1afeALZProthrombin3.4.21.50.666
3biu10UProthrombin3.4.21.50.665
1zrb062Prothrombin3.4.21.50.664
2zhq27UProthrombin3.4.21.50.658
2bxtC2DProthrombin3.4.21.50.655
2zff53UProthrombin3.4.21.50.646
2zda32UProthrombin3.4.21.50.644
2zhf49UProthrombin3.4.21.50.644
1t4v14AProthrombin3.4.21.50.639
1ta6177Prothrombin3.4.21.50.637
1k21IGNProthrombin3.4.21.50.635
2zfr46UProthrombin3.4.21.50.631
2zg050UProthrombin3.4.21.50.629
1d6w00RProthrombin3.4.21.50.628
2zfq45UProthrombin3.4.21.50.627
3qto10PProthrombin3.4.21.50.627
2r2mI50Prothrombin3.4.21.50.626
4e7r0NWProthrombin3.4.21.50.624
1mu6CDAProthrombin3.4.21.50.622
1t4u81AProthrombin3.4.21.50.620
2v3oI26Prothrombin3.4.21.50.620
1zgv501Prothrombin3.4.21.50.619
1ae8AZLProthrombin3.4.21.50.618
3p1799PProthrombin3.4.21.50.618
1d4pBPPProthrombin3.4.21.50.615
1ypeUIPProthrombin3.4.21.50.615
1ypgUIRProthrombin3.4.21.50.615
1mueCDDProthrombin3.4.21.50.614
2anmCDOProthrombin3.4.21.50.614
2pksG44Prothrombin3.4.21.50.611
2uuj896Prothrombin3.4.21.50.611
1vzqSHYProthrombin3.4.21.50.610
1k22MELProthrombin3.4.21.50.609
1w7gMIUProthrombin3.4.21.50.608
1yplRA8Prothrombin3.4.21.50.608
1z71L17Prothrombin3.4.21.50.607
4n3l2FNProthrombin3.4.21.50.607
1jwtBLIProthrombin3.4.21.50.606
1c4yIH3Prothrombin3.4.21.50.602
1a4wQWEProthrombin3.4.21.50.601
2zhw12UProthrombin3.4.21.50.599
1c4uIH1Prothrombin3.4.21.50.597
1zgi382Prothrombin3.4.21.50.594
2jh5895Prothrombin3.4.21.50.593
1oytFSNProthrombin3.4.21.50.592
1sb1165Prothrombin3.4.21.50.592
3c27DKKProthrombin3.4.21.50.592
4ax9N5NProthrombin3.4.21.50.590
4az29MUProthrombin3.4.21.50.587
1ypjUIBProthrombin3.4.21.50.586
3dhk23UProthrombin3.4.21.50.584
2zfp19UProthrombin3.4.21.50.583
3c1kT15Prothrombin3.4.21.50.583
1ypkCCRProthrombin3.4.21.50.582
3qtv06PProthrombin3.4.21.50.581
2jh6894Prothrombin3.4.21.50.578
1d3dBZTProthrombin3.4.21.50.575
2uuk897Prothrombin3.4.21.50.572
2cf8ESHProthrombin3.4.21.50.571
2cn0F25Prothrombin3.4.21.50.570
3utu1TSProthrombin3.4.21.50.570
4rn615UProthrombin3.4.21.50.570
4ayy9MXProthrombin3.4.21.50.565
1d9i00PProthrombin3.4.21.50.563
4lxb7R9Prothrombin3.4.21.50.563
2cf9348Prothrombin3.4.21.50.562
2jh0701Prothrombin3.4.21.50.559
3qwc98PProthrombin3.4.21.50.559
5cmx0G6Prothrombin3.4.21.50.559
2v3hI25Prothrombin3.4.21.50.557
1d3pBT3Prothrombin3.4.21.50.551
2bdyUNBProthrombin3.4.21.50.551
1xm1GAHProthrombin3.4.21.50.550
1ypmRA4Prothrombin3.4.21.50.550
1nm6L86Prothrombin3.4.21.50.545
1riwOSCProthrombin3.4.21.50.528
3biv11UProthrombin3.4.21.50.519
3qdzPRO_ALA_PRO_ARGProthrombin3.4.21.50.519
2bvs2CEProthrombin3.4.21.50.516
2gdeSN3Prothrombin3.4.21.50.515
3c35KAIGlutamate receptor ionotropic, kainate 1/0.476
1ny2ARG_PRO_PRO_GLYProthrombin3.4.21.50.475
3egkM18Prothrombin3.4.21.50.473
4ayv9MQProthrombin3.4.21.50.470
3k3hBYEHigh affinity cGMP-specific 3',5'-cyclic phosphodiesterase 9A/0.461
4e907RGHigh affinity cGMP-specific 3',5'-cyclic phosphodiesterase 9A/0.461
4bbyFADAlkyldihydroxyacetonephosphate synthase, peroxisomal2.5.1.260.460
3bg7FADPyranose 2-oxidase/0.459
3c36KAIGlutamate receptor ionotropic, kainate 1/0.459
4gv4MEJPoly [ADP-ribose] polymerase 32.4.2.300.459
3f6891UProthrombin3.4.21.50.458
4bb3KKAIsopenicillin N synthase1.21.3.10.455
4h6pFMNChromate reductase/0.454
4ntdFADThioredoxin reductase/0.454
2jf6S55Strictosidine-O-beta-D-glucosidase3.2.1.1050.452
2zu8GDDMannosyl-3-phosphoglycerate synthase2.4.1.2170.452
4idgNADPutative UDP-glucose 4-epimerase/0.452
3d91REMRenin3.4.23.150.451
5c6cCMPcGMP-dependent protein kinase 22.7.11.120.451
2q1sNAIPutative nucleotide sugar epimerase/ dehydratase/0.449
3mpiFADGlutaryl-CoA dehydrogenase1.3.99.320.449
4f7iNAD3-isopropylmalate dehydrogenase1.1.1.850.449
4j4nD44Peptidylprolyl isomerase/0.449
1o0d163Prothrombin3.4.21.50.448
2pg0FADAcyl-CoA dehydrogenase/0.448
2r8pT6FTransketolase 1/0.448
4gh5NADShort-chain dehydrogenase/reductase SDR/0.448
1lf2R37Plasmepsin-23.4.23.390.447
4id9NADPutative UDP-glucose 4-epimerase/0.447
4r5wXAVPoly [ADP-ribose] polymerase 12.4.2.300.446
1umaIN2Prothrombin3.4.21.50.444
2r8oT5XTransketolase 1/0.444
2wf1ZY1Beta-secretase 13.4.23.460.444
2ziq26UProthrombin3.4.21.50.444
5fd8A5APutative carboxypeptidase yocD/0.444
1r2jFADFkbI/0.443
2pbwDOQGlutamate receptor ionotropic, kainate 1/0.443
2vbpVB1Isopenicillin N synthase1.21.3.10.443
3v0p4GWHisto-blood group ABO system transferase/0.443
4loy6XSProthrombin3.4.21.50.443
3mauEXTPutative sphingosine-1-phosphate lyase/0.442
4zu44TGWxcM-like protein/0.442
2j83BATUlilysin3.4.240.441
1k4mNADNicotinate-nucleotide adenylyltransferase2.7.7.180.440
1owpFADDeoxyribodipyrimidine photo-lyase4.1.99.30.440
2b8l5HABeta-secretase 13.4.23.460.440
2uxoTACHTH-type transcriptional regulator TtgR/0.440
4f1l0RYPoly [ADP-ribose] polymerase 142.4.2.300.440