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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
1y52BTNAvidin-related protein 4/5

Complex with similar binding sites

PDB ID HET Uniprot Name EC Number Binding Site
Similarity		 Align
1y52BTNAvidin-related protein 4/5/1.000
4bcsBTNAvidin-related protein 4/5/0.611
2uywBTNAvd protein/0.609
2fhnBNIAvidin-related protein 4/5/0.600
2fhlBNIAvidin-related protein 4/5/0.566
2rtgBTNStreptavidin/0.554
1mk5BTNStreptavidin/0.552
2uz2BTNAvd protein/0.550
2izgBTNStreptavidin/0.546
2izlIMIStreptavidin/0.540
2aviBTNAvidin/0.538
1lcwSHMStreptavidin/0.530
2rtfBTNStreptavidin/0.528
2rtoIMIStreptavidin/0.526
1stpBTNStreptavidin/0.525
3ry2BTNStreptavidin/0.522
1avdBTNAvidin/0.520
2rtpIMIStreptavidin/0.519
2izhBTNStreptavidin/0.518
4gdaBTNStreptavidin/0.518
1swtBTNStreptavidin/0.515
2rtqIMIStreptavidin/0.514
2rtrIMIStreptavidin/0.514
1srjNABStreptavidin/0.513
1srgMHBStreptavidin/0.509
4bx7B4FStreptavidin/0.507
4dneDTBStreptavidin/0.505
2rtdBTNStreptavidin/0.504
1sriDMBStreptavidin/0.503
2izfBTNStreptavidin/0.502
2rtnIMIStreptavidin/0.501
1sreHABStreptavidin/0.497
2rtiGLLStreptavidin/0.497
2y3fBTNStreptavidin/0.494
1srfMTBStreptavidin/0.493
2rteBTNStreptavidin/0.493
2c4iBTNAvidin/0.492
1df8BTNStreptavidin/0.490
1i9hBNIStreptavidin/0.490
1srhMOBStreptavidin/0.486
3wznBTNStreptavidin/0.485
1lczBH7Streptavidin/0.484
3wyqBTNStreptavidin/0.481
1rxhBNIStreptavidin/0.480
1nqmBTNStreptavidin/0.479
4z28BTNHoefavidin/0.476
4a959MTGlycylpeptide N-tetradecanoyltransferase/0.475
3u9fCLMChloramphenicol acetyltransferase2.3.1.280.472
1nc9IMIStreptavidin/0.470
1swrBTNStreptavidin/0.466
3rdqDTBStreptavidin/0.466
3w8wFADPutative FAD-dependent oxygenase EncM/0.461
2zscBTNTamavidin2/0.457
4yvbBTNStreptavidin/0.455
3jpuTY4Transcriptional activator protein LasR/0.453
3upr1KXHLA class I histocompatibility antigen, B-57 alpha chain/0.453
4bj8BTNAvidin/0.453
2rtmIMIStreptavidin/0.452
4ejn0R4RAC-alpha serine/threonine-protein kinase2.7.11.10.452
1swpBTQStreptavidin/0.451
1sweBTNStreptavidin/0.450
1swnBTNStreptavidin/0.450
2il2LIXRenin3.4.23.150.450
4m9aFDAAcyl-CoA dehydrogenase/0.450
1obnASVIsopenicillin N synthase1.21.3.10.449
2izkGLLStreptavidin/0.449
2h63NAPBiliverdin reductase A1.3.1.240.448
1s0jMUSTrans-sialidase/0.447
3owuEQUSteroid Delta-isomerase5.3.3.10.447
4bfuZVUPantothenate kinase2.7.1.330.447
2g1r3IGRenin3.4.23.150.446
1swdBTNStreptavidin/0.445
1luqBTNStreptavidin/0.444
1qorNDPQuinone oxidoreductase 1/0.444
2b03TUDPhospholipase A2, major isoenzyme3.1.1.40.443
3g45988cAMP-specific 3',5'-cyclic phosphodiesterase 4B3.1.4.530.443
1mepBTNStreptavidin/0.442
2izjBTNStreptavidin/0.442
3mpiFADGlutaryl-CoA dehydrogenase1.3.99.320.442
3pm9FADPutative oxidoreductase/0.442
1i5rHYCEstradiol 17-beta-dehydrogenase 11.1.1.620.441
2vbdV10Isopenicillin N synthase1.21.3.10.441
3ew2BTNHypothetical conserved protein/0.441
3fql79ZGenome polyprotein2.7.7.480.441
4a2zVIQGlycylpeptide N-tetradecanoyltransferase/0.441
1swpBTNStreptavidin/0.440
2bfqAR6[Protein ADP-ribosylglutamate] hydrolase AF_15213.2.20.440
2h2qNAPBifunctional dihydrofolate reductase-thymidylate synthase1.5.1.30.440
2y1oT26UDP-N-acetylmuramoylalanine--D-glutamate ligase6.3.2.90.440
3arvSAUChitinase A/0.440
3dh7FMNIsopentenyl-diphosphate delta-isomerase/0.440
3uwlFOZThymidylate synthase/0.440
4xrgNADHomospermidine synthase2.5.1.440.440
5hes032Mitogen-activated protein kinase kinase kinase 202.7.11.250.440