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sc-PDB

An Annotated Database of Druggable Binding Sites from the Protein DataBank

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Distribution of Cavity similarities measured by Shaper
You can zoom onto the graph by using the mouse to make a selection

Cavities 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

Reference Protein Data Bank Entry :
PDB ID HET Uniprot Name EC Number
2wzbADPPhosphoglycerate kinase 12.7.2.3

Complex with similar cavities

PDB ID HET Uniprot Name EC Number Cavity
Similarity		 Align
2wzbADPPhosphoglycerate kinase 12.7.2.31.000
3zozADPPhosphoglycerate kinase 12.7.2.30.619
1kf0ACPPhosphoglycerate kinase 12.7.2.30.516
2paaATPPhosphoglycerate kinase 22.7.2.30.499
2xe7ADPPhosphoglycerate kinase 12.7.2.30.498
2xe8ACPPhosphoglycerate kinase 12.7.2.30.494
3oquA8SAbscisic acid receptor PYL9/0.492
3c3aADPPhosphoglycerate kinase 12.7.2.30.467
1u30GOXPancreatic alpha-amylase/0.462
3pnlADPPEP-dependent dihydroxyacetone kinase, ADP-binding subunit DhaL2.70.459
1u33LM2Pancreatic alpha-amylase/0.453
2qo4CHDFatty acid-binding protein 10-A, liver basic/0.453
2zgvADPPhosphoglycerate kinase 12.7.2.30.453
2q6cHR13-hydroxy-3-methylglutaryl-coenzyme A reductase1.1.1.340.451
3c35KAIGlutamate receptor ionotropic, kainate 1/0.450
4anuEM7Phosphatidylinositol 4,5-bisphosphate 3-kinase catalytic subunit gamma isoform2.7.1.1530.450
2vttLZDCyclin-dependent kinase 22.7.11.220.447
2yy8SAMtRNA (cytidine(56)-2'-O)-methyltransferase/0.447
3pdqKC6Lysine-specific demethylase 4A1.14.110.447
4fko20KCyclin-dependent kinase 22.7.11.220.447
4ol0GTPGTP-binding nuclear protein Ran/0.446
1k6tXN1Gag-Pol polyprotein3.4.23.160.445
4iqlFMNEnoyl-(Acyl-carrier-protein) reductase II/0.445
3hz5Z64Heat shock protein HSP 90-alpha/0.444
1dq8COA3-hydroxy-3-methylglutaryl-coenzyme A reductase1.1.1.340.443
3uq9TBNPutative adenosine kinase/0.443
4becATPType I restriction enzyme EcoR124II R protein3.1.21.30.443
2przOMPOrotate phosphoribosyltransferase 12.4.2.100.442
2pmnK51Protein kinase 7/0.441
2v5aLZLBiotin carboxylase6.3.4.140.441
3w9rA8SAbscisic acid receptor PYL9/0.440
4kh0ATPAspartate carbamoyltransferase regulatory chain {ECO:0000256|HAMAP-Rule:MF_00002}/0.440