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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
3qvt NAI Myo-inositol-1-phosphate synthase (Ino1)

Complex with similar interaction patterns:

PDB ID HET Uniprot Name EC Number Binding Mode
Similarity		 Align
3qvt NAIMyo-inositol-1-phosphate synthase (Ino1) / 1.146
3qvs NADMyo-inositol-1-phosphate synthase (Ino1) / 1.073
3qvx NADMyo-inositol-1-phosphate synthase (Ino1) / 1.056
3qvw NADMyo-inositol-1-phosphate synthase (Ino1) / 1.041
1x7d NADPutative ornithine cyclodeaminase / 0.781
1la2 NADInositol-3-phosphate synthase 5.5.1.4 0.749
1u7h NADPutative ornithine cyclodeaminase / 0.745
3cin NADMyo-inositol-1-phosphate synthase-related protein / 0.745
1p1i NADInositol-3-phosphate synthase 5.5.1.4 0.728
1orr NADCDP-paratose 2-epimerase / 0.722
3qw2 NADMyo-inositol-1-phosphate synthase (Ino1) / 0.721
4k28 NADShikimate dehydrogenase family protein / 0.719
1u1i NADMyo-inositol-1-phosphate synthase (Ino1) / 0.713
4lis NADUDP-glucose 4-epimerase (Eurofung) / 0.712
1i3l NADUDP-glucose 4-epimerase / 0.710
4plp NADHomospermidine synthase 2.5.1.44 0.707
1p1h NADInositol-3-phosphate synthase 5.5.1.4 0.705
2p9c NAID-3-phosphoglycerate dehydrogenase 1.1.1.95 0.705
2p9e NAID-3-phosphoglycerate dehydrogenase 1.1.1.95 0.698
3ids NADGlyceraldehyde-3-phosphate dehydrogenase, glycosomal 1.2.1.12 0.697
2p9g NAID-3-phosphoglycerate dehydrogenase 1.1.1.95 0.694
1kol NADGlutathione-independent formaldehyde dehydrogenase / 0.692
3cps NADGlyceraldehyde-3-phosphate dehydrogenase / 0.692
1b3r NADAdenosylhomocysteinase 3.3.1.1 0.691
3dmt NADGlyceraldehyde-3-phosphate dehydrogenase, glycosomal 1.2.1.12 0.691
1uxj NADMalate dehydrogenase / 0.689
2vyv NADGlyceraldehyde-3-phosphate dehydrogenase A / 0.689
3d64 NADAdenosylhomocysteinase / 0.689
4lsm NADGlyceraldehyde-3-phosphate dehydrogenase / 0.688
1ptj SNDNAD(P) transhydrogenase subunit alpha part 1 1.6.1.2 0.687
4njo NADD-3-phosphoglycerate dehydrogenase, putative / 0.687
1kvr NADUDP-glucose 4-epimerase 5.1.3.2 0.684
2pa3 NAID-3-phosphoglycerate dehydrogenase 1.1.1.95 0.684
5c7o NADGlyceraldehyde-3-phosphate dehydrogenase, testis-specific 1.2.1.12 0.684
1nai NADUDP-glucose 4-epimerase 5.1.3.2 0.683
1nbo NADGlyceraldehyde-3-phosphate dehydrogenase A, chloroplastic 1.2.1.13 0.682
2q1w NADPutative nucleotide sugar epimerase/ dehydratase / 0.682
2vhv NAIAlanine dehydrogenase 1.4.1.1 0.682
3d4p NADL-lactate dehydrogenase 1 1.1.1.27 0.682
2b69 NADUDP-glucuronic acid decarboxylase 1 4.1.1.35 0.681
4p8r NADGlyceraldehyde-3-phosphate dehydrogenase / 0.681
4xqc NADHomospermidine synthase 2.5.1.44 0.681
1gd1 NADGlyceraldehyde-3-phosphate dehydrogenase / 0.680
1u28 NADNAD(P) transhydrogenase subunit alpha part 1 1.6.1.2 0.680
3cmc NADGlyceraldehyde-3-phosphate dehydrogenase / 0.680
1ky4 NADAdenosylhomocysteinase 3.3.1.1 0.679
2ji6 ADPOxalyl-CoA decarboxylase 4.1.1.8 0.679
1j5p NADL-aspartate dehydrogenase 1.4.1.21 0.677
2q1t NADPutative nucleotide sugar epimerase/ dehydratase / 0.677
3s55 NADPutative short-chain dehydrogenase/reductase / 0.676
4boy NADGlyceraldehyde-3-phosphate dehydrogenase / 0.676
1lld NADL-lactate dehydrogenase 2 1.1.1.27 0.674
3qv1 NADGlyceraldehyde-3-phosphate dehydrogenase GAPA1, chloroplastic 1.2.1.13 0.674
1f8g NADNAD(P) transhydrogenase subunit alpha part 1 1.6.1.2 0.673
3cif NADGlyceraldehyde-3-phosphate dehydrogenase / 0.673
4yac NAIC alpha-dehydrogenase / 0.673
1zem NADXylitol dehydrogenase / 0.672
3orf NADDihydropteridine reductase 1.5.1.34 0.672
4m55 NADUDP-glucuronic acid decarboxylase 1 4.1.1.35 0.672
1yba NADD-3-phosphoglycerate dehydrogenase 1.1.1.95 0.671
3ru9 NADUDP-N-acetylglucosamine 4-epimerase / 0.671
3ruf NADUDP-N-acetylglucosamine 4-epimerase / 0.671
3cos NADAlcohol dehydrogenase 4 1.1.1.1 0.669
3ru7 NADUDP-N-acetylglucosamine 4-epimerase / 0.669
3zcx NADGlyceraldehyde-3-phosphate dehydrogenase / 0.669
1bdm NAXMalate dehydrogenase / 0.668
1u8f NADGlyceraldehyde-3-phosphate dehydrogenase 1.2.1.12 0.668
3tqh NDPQuinone oxidoreductase / 0.668
4gll NADUDP-glucuronic acid decarboxylase 1 4.1.1.35 0.668
3ruc NADUDP-N-acetylglucosamine 4-epimerase / 0.667
4nbu NAI3-oxoacyl-(Acyl-carrier-protein) reductase / 0.667
3wv8 ATPHmd co-occurring protein HcgE / 0.666
1nq5 NADGlyceraldehyde-3-phosphate dehydrogenase / 0.665
2g76 NADD-3-phosphoglycerate dehydrogenase 1.1.1.95 0.665
4xrg NADHomospermidine synthase 2.5.1.44 0.665
1hdg NADGlyceraldehyde-3-phosphate dehydrogenase / 0.664
1jki NAIInositol-3-phosphate synthase 5.5.1.4 0.664
1sow NADL-lactate dehydrogenase 1.1.1.27 0.664
2d1y NADOxidoreductase, short-chain dehydrogenase/reductase family / 0.664
3k2b NADGlyceraldehyde-3-phosphate dehydrogenase GAPA1, chloroplastic 1.2.1.13 0.664
3l4s NADGlyceraldehyde-3-phosphate dehydrogenase 1 / 0.664
3rua NADUDP-N-acetylglucosamine 4-epimerase / 0.664
4tvb NADHomospermidine synthase 2.5.1.44 0.664
3pgx NADUncharacterized NAD-dependent oxidoreductase MAP_4146 / 0.663
1f8f NADBenzyl alcohol dehydrogenase / 0.661
1iy8 NADLevodione reductase / 0.661
2q28 ADPOxalyl-CoA decarboxylase 4.1.1.8 0.661
2jib ADPOxalyl-CoA decarboxylase 4.1.1.8 0.660
2o4c NADErythronate-4-phosphate dehydrogenase / 0.659
1dhr NADDihydropteridine reductase 1.5.1.34 0.658
3pym NADGlyceraldehyde-3-phosphate dehydrogenase 3 1.2.1.12 0.658
3ruh NADUDP-N-acetylglucosamine 4-epimerase / 0.658
2c59 NADGDP-mannose 3,5-epimerase 5.1.3.18 0.657
2dkn NAI3-alpha-hydroxysteroid dehydrogenase / 0.657
1e3s NAD3-hydroxyacyl-CoA dehydrogenase type-2 1.1.1.35 0.656
1vc2 NADGlyceraldehyde-3-phosphate dehydrogenase / 0.656
2a92 NAIL-lactate dehydrogenase / 0.656
1gad NADGlyceraldehyde-3-phosphate dehydrogenase A / 0.655
3hja NADGlyceraldehyde-3-phosphate dehydrogenase / 0.655
1h2b NAJNAD-dependent alcohol dehydrogenase / 0.654
2vyn NADGlyceraldehyde-3-phosphate dehydrogenase A / 0.654
3wv7 ADPHmd co-occurring protein HcgE / 0.654
1dss NADGlyceraldehyde-3-phosphate dehydrogenase 1.2.1.12 0.653
1gyp NADGlyceraldehyde-3-phosphate dehydrogenase, glycosomal 1.2.1.12 0.653
1x15 NADNAD(P) transhydrogenase subunit alpha 1.6.1.2 0.653
4k9d NADGlyceraldehyde-3-phosphate dehydrogenase 1.2.1.12 0.653
4u8k FDAUDP-galactopyranose mutase / 0.653
1szj NADGlyceraldehyde-3-phosphate dehydrogenase 1.2.1.12 0.652
2q1s NAIPutative nucleotide sugar epimerase/ dehydratase / 0.652
3m13 FADMonomeric sarcosine oxidase 1.5.3.1 0.652
4tm3 FADKtzI / 0.652
4yr9 NADL-threonine 3-dehydrogenase, mitochondrial 1.1.1.103 0.652
6adh NADAlcohol dehydrogenase E chain 1.1.1.1 0.652
3uxy NADShort-chain dehydrogenase/reductase SDR / 0.651
4tm1 FDAKtzI / 0.651
1b8v NADMalate dehydrogenase / 0.650
3nt2 NAIInositol 2-dehydrogenase/D-chiro-inositol 3-dehydrogenase 1.1.1.18 0.650
3rud NADUDP-N-acetylglucosamine 4-epimerase / 0.650