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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
5d2eNAPMlnE

Complex with similar cavities

PDB ID HET Uniprot Name EC Number Cavity
Similarity		 Align
5d2eNAPMlnE/1.000
2zwvSAHProbable ribosomal RNA small subunit methyltransferase/0.485
1sezOMNProtoporphyrinogen oxidase, mitochondrial1.3.3.40.469
1jnrFADAdenylylsulfate reductase, subunit A (AprA)/0.460
4iacACPcAMP-dependent protein kinase catalytic subunit alpha2.7.11.110.456
4qe6JN3Bile acid receptor/0.456
3iaeD7KBenzaldehyde lyase/0.452
4s33ANPMitogen-activated protein kinase 12.7.11.240.450
2c0oL2GTyrosine-protein kinase HCK2.7.10.20.449
2xb5I7TTetracycline repressor protein class D/0.449
1jbpADPcAMP-dependent protein kinase catalytic subunit alpha2.7.11.110.447
5iqiGNPBifunctional AAC/APH2.3.10.446
1jnzFADAdenylylsulfate reductase, subunit A (AprA)/0.444
2ekpNAD2-deoxy-D-gluconate 3-dehydrogenase/0.444
3gy0NAPNAD(P)-dependent oxidoreductase/0.443
3q71AR6Poly [ADP-ribose] polymerase 142.4.2.300.443
4auxXTCTetracycline repressor protein class D/0.442
3qw4U5POrotidine-5-phosphate decarboxylase/orotate phosphoribosyltransferase, putative/0.441
4dieC5PCytidylate kinase/0.441
5fklTDCTetracycline repressor protein class D/0.441
3dgaNDPBifunctional dihydrofolate reductase-thymidylate synthase1.5.1.30.440
3epsATPIsocitrate dehydrogenase kinase/phosphatase/0.440
3nbvANPKetohexokinase/0.440
4c7kNAPCorticosteroid 11-beta-dehydrogenase isozyme 11.1.1.1460.440
4xgxADPFAD:protein FMN transferase/0.440