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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
3qvw NAD Myo-inositol-1-phosphate synthase (Ino1)

Complex with similar interaction patterns:

PDB ID HET Uniprot Name EC Number Binding Mode
Similarity		 Align
3qvw NADMyo-inositol-1-phosphate synthase (Ino1) / 1.138
3qvs NADMyo-inositol-1-phosphate synthase (Ino1) / 1.074
3qvx NADMyo-inositol-1-phosphate synthase (Ino1) / 1.072
3qvt NAIMyo-inositol-1-phosphate synthase (Ino1) / 1.041
3qw2 NADMyo-inositol-1-phosphate synthase (Ino1) / 0.857
1la2 NADInositol-3-phosphate synthase 5.5.1.4 0.769
3cin NADMyo-inositol-1-phosphate synthase-related protein / 0.749
1hdg NADGlyceraldehyde-3-phosphate dehydrogenase / 0.719
2pa3 NAID-3-phosphoglycerate dehydrogenase 1.1.1.95 0.712
4k28 NADShikimate dehydrogenase family protein / 0.711
4xq9 NADHomospermidine synthase 2.5.1.44 0.710
1u1i NADMyo-inositol-1-phosphate synthase (Ino1) / 0.705
3cps NADGlyceraldehyde-3-phosphate dehydrogenase / 0.705
2p9c NAID-3-phosphoglycerate dehydrogenase 1.1.1.95 0.696
1i3l NADUDP-glucose 4-epimerase / 0.694
3ru9 NADUDP-N-acetylglucosamine 4-epimerase / 0.693
4yac NAIC alpha-dehydrogenase / 0.693
1jki NAIInositol-3-phosphate synthase 5.5.1.4 0.692
3ruf NADUDP-N-acetylglucosamine 4-epimerase / 0.692
1p1i NADInositol-3-phosphate synthase 5.5.1.4 0.690
4tm3 FADKtzI / 0.690
4xqc NADHomospermidine synthase 2.5.1.44 0.690
4plp NADHomospermidine synthase 2.5.1.44 0.689
2p9e NAID-3-phosphoglycerate dehydrogenase 1.1.1.95 0.687
1x7d NADPutative ornithine cyclodeaminase / 0.685
3ids NADGlyceraldehyde-3-phosphate dehydrogenase, glycosomal 1.2.1.12 0.684
3k2b NADGlyceraldehyde-3-phosphate dehydrogenase GAPA1, chloroplastic 1.2.1.13 0.683
6adh NADAlcohol dehydrogenase E chain 1.1.1.1 0.682
2p9g NAID-3-phosphoglycerate dehydrogenase 1.1.1.95 0.679
4fn4 NADShort chain dehydrogenase / 0.679
1f8g NADNAD(P) transhydrogenase subunit alpha part 1 1.6.1.2 0.678
4rvu NDPProbable quinone reductase Qor (NADPH:quinone reductase) (Zeta-crystallin homolog protein) / 0.677
1kvr NADUDP-glucose 4-epimerase 5.1.3.2 0.676
1ptj SNDNAD(P) transhydrogenase subunit alpha part 1 1.6.1.2 0.676
3ksd NADGlyceraldehyde-3-phosphate dehydrogenase 1 / 0.676
5cdg NAJAlcohol dehydrogenase E chain 1.1.1.1 0.676
1c1d NAIPhenylalanine dehydrogenase / 0.675
1h2b NAJNAD-dependent alcohol dehydrogenase / 0.675
3cif NADGlyceraldehyde-3-phosphate dehydrogenase / 0.675
3cmc NADGlyceraldehyde-3-phosphate dehydrogenase / 0.675
4xrg NADHomospermidine synthase 2.5.1.44 0.675
1j5p NADL-aspartate dehydrogenase 1.4.1.21 0.674
2dfv NADL-threonine 3-dehydrogenase / 0.673
3g5s FADMethylenetetrahydrofolate--tRNA-(uracil-5-)-methyltransferase TrmFO / 0.673
3l4s NADGlyceraldehyde-3-phosphate dehydrogenase 1 / 0.673
4dxh NAJAlcohol dehydrogenase E chain 1.1.1.1 0.673
5kj1 NAJAlcohol dehydrogenase E chain 1.1.1.1 0.673
5kj6 NAJAlcohol dehydrogenase E chain 1.1.1.1 0.673
1ky4 NADAdenosylhomocysteinase 3.3.1.1 0.672
1pjc NADAlanine dehydrogenase / 0.672
3d4p NADL-lactate dehydrogenase 1 1.1.1.27 0.672
5cds NAJAlcohol dehydrogenase E chain 1.1.1.1 0.672
5cdt NAJAlcohol dehydrogenase E chain 1.1.1.1 0.672
2vyn NADGlyceraldehyde-3-phosphate dehydrogenase A / 0.671
3g5q FADMethylenetetrahydrofolate--tRNA-(uracil-5-)-methyltransferase TrmFO / 0.671
3ruc NADUDP-N-acetylglucosamine 4-epimerase / 0.671
2ji6 ADPOxalyl-CoA decarboxylase 4.1.1.8 0.670
2q1s NAIPutative nucleotide sugar epimerase/ dehydratase / 0.670
3orf NADDihydropteridine reductase 1.5.1.34 0.670
4z0h NADGlyceraldehyde-3-phosphate dehydrogenase GAPC1, cytosolic 1.2.1.12 0.670
1npt NADGlyceraldehyde-3-phosphate dehydrogenase / 0.669
2q1u NADPutative nucleotide sugar epimerase/ dehydratase / 0.669
4gll NADUDP-glucuronic acid decarboxylase 1 4.1.1.35 0.669
1uxj NADMalate dehydrogenase / 0.668
2b69 NADUDP-glucuronic acid decarboxylase 1 4.1.1.35 0.668
3cea NADMyo-inositol 2-dehydrogenase-like (Promiscuous) / 0.668
4xb1 NDP319aa long hypothetical homoserine dehydrogenase / 0.668
5fa5 MTAProtein arginine N-methyltransferase 5 / 0.668
1yba NADD-3-phosphoglycerate dehydrogenase 1.1.1.95 0.667
2a92 NAIL-lactate dehydrogenase / 0.667
2q1w NADPutative nucleotide sugar epimerase/ dehydratase / 0.667
1szj NADGlyceraldehyde-3-phosphate dehydrogenase 1.2.1.12 0.666
2ep7 NADGlyceraldehyde-3-phosphate dehydrogenase / 0.666
2ji9 ADPOxalyl-CoA decarboxylase 4.1.1.8 0.666
3cos NADAlcohol dehydrogenase 4 1.1.1.1 0.666
2vhv NAIAlanine dehydrogenase 1.4.1.1 0.665
2oxi NADAlcohol dehydrogenase E chain 1.1.1.1 0.664
2vyv NADGlyceraldehyde-3-phosphate dehydrogenase A / 0.664
1kol NADGlutathione-independent formaldehyde dehydrogenase / 0.663
3bgi SAHThiopurine S-methyltransferase 2.1.1.67 0.663
3dmt NADGlyceraldehyde-3-phosphate dehydrogenase, glycosomal 1.2.1.12 0.663
3rud NADUDP-N-acetylglucosamine 4-epimerase / 0.663
4nbu NAI3-oxoacyl-(Acyl-carrier-protein) reductase / 0.663
1mgo NADAlcohol dehydrogenase E chain 1.1.1.1 0.662
3icp NADNAD-dependent epimerase/dehydratase / 0.662
2jkv NAP6-phosphogluconate dehydrogenase, decarboxylating 1.1.1.44 0.661
4nfh NAJAlcohol dehydrogenase E chain 1.1.1.1 0.661
2p5y NADUDP-glucose 4-epimerase / 0.660
3oq6 NAJAlcohol dehydrogenase E chain 1.1.1.1 0.660
3ruh NADUDP-N-acetylglucosamine 4-epimerase / 0.660
4dwv NAJAlcohol dehydrogenase E chain 1.1.1.1 0.660
5kcz NAJAlcohol dehydrogenase E chain 1.1.1.1 0.660
5kje NAJAlcohol dehydrogenase E chain 1.1.1.1 0.660
1pzh NADLactate dehydrogenase / 0.659
2ohx NADAlcohol dehydrogenase E chain 1.1.1.1 0.659
4cr8 NADN-acylmannosamine 1-dehydrogenase 1.1.1.233 0.659
5c7o NADGlyceraldehyde-3-phosphate dehydrogenase, testis-specific 1.2.1.12 0.659
1sow NADL-lactate dehydrogenase 1.1.1.27 0.658
2a94 AP0L-lactate dehydrogenase 1.1.1.27 0.658
2oor NADNAD(P) transhydrogenase subunit alpha part 1 1.6.1.2 0.657
2rgh FADAlpha-Glycerophosphate Oxidase / 0.657
5kcp NAJAlcohol dehydrogenase E chain 1.1.1.1 0.657
5kjc NAJAlcohol dehydrogenase E chain 1.1.1.1 0.657
5kjf NAJAlcohol dehydrogenase E chain 1.1.1.1 0.657
1b8v NADMalate dehydrogenase / 0.656
2q28 ADPOxalyl-CoA decarboxylase 4.1.1.8 0.656
3aw9 NADNAD-dependent epimerase/dehydratase / 0.656
3ing NDPHomoserine dehydrogenase related protein / 0.656
4gut FADLysine-specific histone demethylase 1B 1 0.656
4nfs NAJAlcohol dehydrogenase E chain 1.1.1.1 0.656
1hsz NADAlcohol dehydrogenase 1B 1.1.1.1 0.655
1x15 NADNAD(P) transhydrogenase subunit alpha 1.6.1.2 0.655
1zem NADXylitol dehydrogenase / 0.655
1gad NADGlyceraldehyde-3-phosphate dehydrogenase A / 0.654
1psd NADD-3-phosphoglycerate dehydrogenase 1.1.1.95 0.654
1wwk NAD307aa long hypothetical phosphoglycerate dehydrogenase / 0.654
2ji7 ADPOxalyl-CoA decarboxylase 4.1.1.8 0.654
2qa2 FADPolyketide oxygenase CabE / 0.654
3ehe NADUDP-glucose 4-epimerase (GalE-1) / 0.654
4xb2 NDP319aa long hypothetical homoserine dehydrogenase / 0.654
1u28 NADNAD(P) transhydrogenase subunit alpha part 1 1.6.1.2 0.653
2jib ADPOxalyl-CoA decarboxylase 4.1.1.8 0.653
4eqs FADCoenzyme A disulfide reductase / 0.652
4lis NADUDP-glucose 4-epimerase (Eurofung) / 0.652
1h2h NADL-aspartate dehydrogenase 1.4.1.21 0.651
1i9g SAMtRNA (adenine(58)-N(1))-methyltransferase TrmI / 0.651
2fsv NADNAD(P) transhydrogenase subunit alpha part 1 1.6.1.2 0.651
2p5u NADUDP-glucose 4-epimerase / 0.651
2voj NADAlanine dehydrogenase 1.4.1.1 0.651
3wv8 ATPHmd co-occurring protein HcgE / 0.651
4l4s NAIL-lactate dehydrogenase A chain 1.1.1.27 0.651
1vc2 NADGlyceraldehyde-3-phosphate dehydrogenase / 0.650
2c31 ADPOxalyl-CoA decarboxylase 4.1.1.8 0.650