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sc-PDB

An Annotated Database of Druggable Binding Sites from the Protein DataBank

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Distribution of Interaction pattern similarity measured by Grim
You can zoom onto the graph by using the mouse to make a selection

Binding Modes are compared using Grim.
For more information, please see the following publication: Desaphy J. et al. Encoding Protein-Ligand Interaction Patterns in Fingerprints and Graphs J. Chem. Inf. Model., 2013, 53 (3), pp 623-637
Binding modes are considered as similar when the similarity value is greater than 0.65


Reference Protein Data Bank Entry :
PDB ID HET Uniprot Name EC Number
1zha PEP 2-dehydro-3-deoxyphosphooctonate aldolase 2.5.1.55

Complex with similar interaction patterns:

PDB ID HET Uniprot Name EC Number Binding Mode
Similarity		 Align
1zha PEP2-dehydro-3-deoxyphosphooctonate aldolase 2.5.1.55 0.873
1t8x PEP2-dehydro-3-deoxyphosphooctonate aldolase 2.5.1.55 0.863
2nx3 PEP2-dehydro-3-deoxyphosphooctonate aldolase 2.5.1.55 0.764
1zji 2PG2-dehydro-3-deoxyphosphooctonate aldolase 2.5.1.55 0.753
2o1o RISPutative farnesyl pyrophosphate synthase / 0.667
1kfl PEPPhospho-2-dehydro-3-deoxyheptonate aldolase, Phe-sensitive 2.5.1.54 0.664
2py7 ATPPhosphoenolpyruvate carboxykinase (ATP) / 0.663
4dc1 NDPPutative ketoacyl reductase 1.3.1 0.662
3ai2 NDPNADPH-sorbose reductase / 0.660
1vhn FMNtRNA-dihydrouridine synthase / 0.657
4cnz ADPNitrogen regulatory protein P-II 1 / 0.656
2xei ARKGlutamate carboxypeptidase 2 3.4.17.21 0.655
3aq0 ISYSolanesyl diphosphate synthase 3, chloroplastic/mitochondrial 2.5.1.85 0.655
4cd2 FOLDihydrofolate reductase 1.5.1.3 0.655
4xyb NDPFormate dehydrogenase / 0.655
1tww HH2Dihydropteroate synthase / 0.654
1w4z NAPPutative ketoacyl reductase 1.3.1 0.654
3qrw NDPPutative ketoacyl reductase 1.3.1 0.654
2yww ATPAspartate carbamoyltransferase regulatory chain / 0.653
2xeg CI9Glutamate carboxypeptidase 2 3.4.17.21 0.652
2xej OKDGlutamate carboxypeptidase 2 3.4.17.21 0.652
2cd2 FOLDihydrofolate reductase 1.5.1.3 0.651
4to4 DGTDeoxynucleoside triphosphate triphosphohydrolase SAMHD1 3.1.5 0.651
4up3 NDPThioredoxin reductase / 0.651