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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
5dt9 NAD Erythronate-4-phosphate dehydrogenase

Complex with similar interaction patterns:

PDB ID HET Uniprot Name EC Number Binding Mode
Similarity		 Align
5dt9 NADErythronate-4-phosphate dehydrogenase / 0.927
2o4c NADErythronate-4-phosphate dehydrogenase / 0.719
4j43 NADUncharacterized protein / 0.700
2p9c NAID-3-phosphoglycerate dehydrogenase 1.1.1.95 0.694
3kb6 NADD-lactate dehydrogenase / 0.694
2pa3 NAID-3-phosphoglycerate dehydrogenase 1.1.1.95 0.690
2g76 NADD-3-phosphoglycerate dehydrogenase 1.1.1.95 0.689
4j49 NADUncharacterized protein / 0.688
4hfm NAP2-alkenal reductase (NADP(+)-dependent) / 0.687
1h2b NAJNAD-dependent alcohol dehydrogenase / 0.686
3oet NADErythronate-4-phosphate dehydrogenase / 0.685
2p9e NAID-3-phosphoglycerate dehydrogenase 1.1.1.95 0.683
4jk3 NADUncharacterized protein / 0.683
1wwk NAD307aa long hypothetical phosphoglycerate dehydrogenase / 0.681
1teh NADAlcohol dehydrogenase class-3 1.1.1.1 0.678
2p9g NAID-3-phosphoglycerate dehydrogenase 1.1.1.95 0.677
4plp NADHomospermidine synthase 2.5.1.44 0.677
4xqc NADHomospermidine synthase 2.5.1.44 0.677
4rvu NDPProbable quinone reductase Qor (NADPH:quinone reductase) (Zeta-crystallin homolog protein) / 0.675
4xrg NADHomospermidine synthase 2.5.1.44 0.675
3nx4 NAPPutative oxidoreductase / 0.672
2vhz NAIAlanine dehydrogenase 1.4.1.1 0.671
1ht0 NADAlcohol dehydrogenase 1C 1.1.1.1 0.670
3wle NAD(R)-specific carbonyl reductase / 0.670
4j4b NAIUncharacterized protein / 0.670
4njo NADD-3-phosphoglycerate dehydrogenase, putative / 0.666
2ph5 NADHomospermidine synthase / 0.665
1j49 NADD-lactate dehydrogenase 1.1.1.28 0.664
4xq9 NADHomospermidine synthase 2.5.1.44 0.664
1yba NADD-3-phosphoglycerate dehydrogenase 1.1.1.95 0.663
1x7d NADPutative ornithine cyclodeaminase / 0.662
2dbz NAPGlyoxylate reductase 1.1.1.26 0.662
3two NDPMannitol dehydrogenase / 0.662
4tvb NADHomospermidine synthase 2.5.1.44 0.662
2ome NADC-terminal-binding protein 2 / 0.661
1kol NADGlutathione-independent formaldehyde dehydrogenase / 0.659
4bv9 NDPKetimine reductase mu-crystallin 1.5.1.25 0.659
1o8c NDPProbable acrylyl-CoA reductase AcuI 1.3.1.84 0.658
2oxi NADAlcohol dehydrogenase E chain 1.1.1.1 0.658
2vhw NAIAlanine dehydrogenase 1.4.1.1 0.658
4c4o NADSADH / 0.658
1u7h NADPutative ornithine cyclodeaminase / 0.657
2ekl NADD-3-phosphoglycerate dehydrogenase / 0.657
3d4p NADL-lactate dehydrogenase 1 1.1.1.27 0.657
5kjf NAJAlcohol dehydrogenase E chain 1.1.1.1 0.657
2x0i NAIMalate dehydrogenase / 0.656
4j49 NAIUncharacterized protein / 0.656
5kcp NAJAlcohol dehydrogenase E chain 1.1.1.1 0.656
1pjc NADAlanine dehydrogenase / 0.655
2hu2 NADC-terminal binding protein 1 / 0.655
2ohx NADAlcohol dehydrogenase E chain 1.1.1.1 0.655
4nfs NAJAlcohol dehydrogenase E chain 1.1.1.1 0.655
5cdt NAJAlcohol dehydrogenase E chain 1.1.1.1 0.655
3jv7 NADSecondary alcohol dehydrogenase / 0.654
4ng5 NAJAlcohol dehydrogenase E chain 1.1.1.1 0.654
2vhx NADAlanine dehydrogenase 1.4.1.1 0.653
5kje NAJAlcohol dehydrogenase E chain 1.1.1.1 0.652
1f8f NADBenzyl alcohol dehydrogenase / 0.651
4xd2 NAIAlcohol dehydrogenase E chain 1.1.1.1 0.651
1het NADAlcohol dehydrogenase E chain 1.1.1.1 0.650
1hf3 NADAlcohol dehydrogenase E chain 1.1.1.1 0.650