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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
4ebf NAD Phosphonate dehydrogenase 1.20.1.1

Complex with similar interaction patterns:

PDB ID HET Uniprot Name EC Number Binding Mode
Similarity		 Align
4ebf NADPhosphonate dehydrogenase 1.20.1.1 0.996
4e5p NADPhosphonate dehydrogenase 1.20.1.1 0.864
4nu5 NADPhosphonate dehydrogenase 1.20.1.1 0.773
4e5k NADPhosphonate dehydrogenase 1.20.1.1 0.752
4nu6 NADPhosphonate dehydrogenase 1.20.1.1 0.751
3ing NDPHomoserine dehydrogenase related protein / 0.742
5bqf NAPProbable hydroxyacid dehydrogenase protein / 0.732
4e5m NAPPhosphonate dehydrogenase 1.20.1.1 0.721
3cea NADMyo-inositol 2-dehydrogenase-like (Promiscuous) / 0.720
4xcv NDPProbable hydroxyacid dehydrogenase protein / 0.714
1gz4 ATPNAD-dependent malic enzyme, mitochondrial 1.1.1.38 0.711
2ph5 NADHomospermidine synthase / 0.710
1llq NADNAD-dependent malic enzyme, mitochondrial 1.1.1.38 0.709
1o0s NAINAD-dependent malic enzyme, mitochondrial 1.1.1.38 0.706
3oet NADErythronate-4-phosphate dehydrogenase / 0.702
4weq NAPNAD-dependent dehydrogenase / 0.701
4z0p NDPNAD-dependent dehydrogenase / 0.701
1pj4 ATPNAD-dependent malic enzyme, mitochondrial 1.1.1.38 0.697
2voj NADAlanine dehydrogenase 1.4.1.1 0.697
2jcv NDP1-deoxy-D-xylulose 5-phosphate reductoisomerase / 0.695
2o4c NADErythronate-4-phosphate dehydrogenase / 0.694
2vhx NADAlanine dehydrogenase 1.4.1.1 0.685
4e5n NADPhosphonate dehydrogenase 1.20.1.1 0.683
3wbb NAPMeso-diaminopimelate D-dehydrogenase / 0.681
2i9p NAD3-hydroxyisobutyrate dehydrogenase, mitochondrial 1.1.1.31 0.679
1j49 NADD-lactate dehydrogenase 1.1.1.28 0.677
3nt2 NADInositol 2-dehydrogenase/D-chiro-inositol 3-dehydrogenase 1.1.1.18 0.677
2jcx NDP1-deoxy-D-xylulose 5-phosphate reductoisomerase / 0.676
2vhw NAIAlanine dehydrogenase 1.4.1.1 0.676
1cf2 NAPGlyceraldehyde-3-phosphate dehydrogenase / 0.674
2vhz NAIAlanine dehydrogenase 1.4.1.1 0.673
3n7u NADFormate dehydrogenase, chloroplastic/mitochondrial / 0.673
3adp NAILambda-crystallin 1.1.1.45 0.672
3nt4 NAIInositol 2-dehydrogenase/D-chiro-inositol 3-dehydrogenase 1.1.1.18 0.672
2vhv NAIAlanine dehydrogenase 1.4.1.1 0.669
5j23 A2RPutative 2-hydroxyacid dehydrogenase / 0.668
1lld NADL-lactate dehydrogenase 2 1.1.1.27 0.667
4njo NADD-3-phosphoglycerate dehydrogenase, putative / 0.667
4o63 NADGlyceraldehyde-3-phosphate dehydrogenase 1.2.1.12 0.667
1hku NADC-terminal-binding protein 1 1.1.1 0.665
1pj3 NADNAD-dependent malic enzyme, mitochondrial 1.1.1.38 0.664
1yjq NAP2-dehydropantoate 2-reductase 1.1.1.169 0.664
3tnl NADShikimate dehydrogenase (NADP(+)) / 0.664
4xb1 NDP319aa long hypothetical homoserine dehydrogenase / 0.664
1qr6 NADNAD-dependent malic enzyme, mitochondrial 1.1.1.38 0.662
2p9g NAID-3-phosphoglycerate dehydrogenase 1.1.1.95 0.662
3kb6 NADD-lactate dehydrogenase / 0.660
3tqh NDPQuinone oxidoreductase / 0.660
1jki NAIInositol-3-phosphate synthase 5.5.1.4 0.659
3p2o NADBifunctional protein FolD / 0.659
3wbf NAPMeso-diaminopimelate D-dehydrogenase / 0.659
1i36 NAPConserved protein / 0.658
4aic NDP1-deoxy-D-xylulose 5-phosphate reductoisomerase / 0.658
4xye NADFormate dehydrogenase / 0.658
2ixa NADAlpha-N-acetylgalactosaminidase 3.2.1.49 0.656
2czc NADGlyceraldehyde-3-phosphate dehydrogenase 1.2.1.59 0.654
2j3k NAPNADPH-dependent oxidoreductase 2-alkenal reductase 1.3.1.74 0.654
3h3j NADL-lactate dehydrogenase 1 1.1.1.27 0.654
2dt5 NADRedox-sensing transcriptional repressor Rex / 0.652
3mvq NDPGlutamate dehydrogenase 1, mitochondrial 1.4.1.3 0.651