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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
3tdvGDPGentamicin resistance protein

Complex with similar binding sites

PDB ID HET Uniprot Name EC Number Binding Site
Similarity		 Align
3tdvGDPGentamicin resistance protein/1.000
5iqfGDPBifunctional AAC/APH2.3.10.542
3tdwGDPGentamicin resistance protein/0.521
2phkATPPhosphorylase b kinase gamma catalytic chain, skeletal muscle/heart isoform2.7.11.190.489
4orkGDPBifunctional AAC/APH2.3.10.480
4fv6E57Mitogen-activated protein kinase 12.7.11.240.461
4oa9ANPProtein BRASSINOSTEROID INSENSITIVE 12.7.10.10.460
4qpmADPMitotic checkpoint serine/threonine-protein kinase BUB12.7.11.10.459
3gu7ADPDeath-associated protein kinase 12.7.11.10.457
5dnrATPAurora kinase A2.7.11.10.454
4awiAQ2Mitogen-activated protein kinase 82.7.11.240.452
2pd8FADVivid PAS protein VVD/0.450
4enxZ20Serine/threonine-protein kinase pim-12.7.11.10.448
4qnyANPMitogen activated protein kinase, putative/0.446
1pjkANPCasein kinase II subunit alpha2.7.11.10.444
2z7qACPRibosomal protein S6 kinase alpha-12.7.11.10.444
4oh4ANPProtein BRASSINOSTEROID INSENSITIVE 12.7.10.10.444
1dayGNPCasein kinase II subunit alpha2.7.11.10.441
1mruAGSSerine/threonine-protein kinase PknB2.7.11.10.441
4fl3ANPTyrosine-protein kinase SYK2.7.10.20.441
4fv5EK9Mitogen-activated protein kinase 12.7.11.240.440
4xcvNDPProbable hydroxyacid dehydrogenase protein/0.440