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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
1hku NAD C-terminal-binding protein 1 1.1.1

Complex with similar interaction patterns:

PDB ID HET Uniprot Name EC Number Binding Mode
Similarity		 Align
1hku NADC-terminal-binding protein 1 1.1.1 1.128
2ome NADC-terminal-binding protein 2 / 0.904
2hu2 NADC-terminal binding protein 1 / 0.824
3oet NADErythronate-4-phosphate dehydrogenase / 0.796
2o4c NADErythronate-4-phosphate dehydrogenase / 0.750
4lcj NADC-terminal-binding protein 2 / 0.749
1j5p NADL-aspartate dehydrogenase 1.4.1.21 0.748
1wwk NAD307aa long hypothetical phosphoglycerate dehydrogenase / 0.748
2gsd NADFormate dehydrogenase / 0.746
2dc1 NADProbable L-aspartate dehydrogenase / 0.729
2g76 NADD-3-phosphoglycerate dehydrogenase 1.1.1.95 0.726
4njo NADD-3-phosphoglycerate dehydrogenase, putative / 0.721
4c4o NADSADH / 0.716
1psd NADD-3-phosphoglycerate dehydrogenase 1.1.1.95 0.713
4e5n NADPhosphonate dehydrogenase 1.20.1.1 0.713
4nu6 NADPhosphonate dehydrogenase 1.20.1.1 0.713
2pa3 NAID-3-phosphoglycerate dehydrogenase 1.1.1.95 0.712
4e5k NADPhosphonate dehydrogenase 1.20.1.1 0.711
4j49 NADUncharacterized protein / 0.708
3x2f NAIAdenosylhomocysteinase / 0.704
2g5c NADPrephenate dehydrogenase / 0.701
4j43 NADUncharacterized protein / 0.701
5ig2 NADShort-chain dehydrogenase/reductase SDR / 0.700
1sc6 NADD-3-phosphoglycerate dehydrogenase 1.1.1.95 0.698
4xwz FADFructosyl amine:oxygen oxidoreductase / 0.698
1la2 NADInositol-3-phosphate synthase 5.5.1.4 0.697
1dxy NADD-2-hydroxyisocaproate dehydrogenase 1.1.1 0.695
1kol NADGlutathione-independent formaldehyde dehydrogenase / 0.695
1yba NADD-3-phosphoglycerate dehydrogenase 1.1.1.95 0.695
3d64 NADAdenosylhomocysteinase / 0.695
4j49 NAIUncharacterized protein / 0.695
1jki NAIInositol-3-phosphate synthase 5.5.1.4 0.692
2ekl NADD-3-phosphoglycerate dehydrogenase / 0.691
1sow NADL-lactate dehydrogenase 1.1.1.27 0.690
1f0y NADHydroxyacyl-coenzyme A dehydrogenase, mitochondrial 1.1.1.35 0.689
1t2c NAIL-lactate dehydrogenase 1.1.1.27 0.688
2vhz NAIAlanine dehydrogenase 1.4.1.1 0.688
4hb9 FADUncharacterized protein / 0.688
2dt5 NADRedox-sensing transcriptional repressor Rex / 0.687
3cif NADGlyceraldehyde-3-phosphate dehydrogenase / 0.687
1vsv NADGlyceraldehyde-3-phosphate dehydrogenase / 0.686
1bw9 NADPhenylalanine dehydrogenase / 0.685
1il0 NADHydroxyacyl-coenzyme A dehydrogenase, mitochondrial 1.1.1.35 0.685
4xq9 NADHomospermidine synthase 2.5.1.44 0.685
1dss NADGlyceraldehyde-3-phosphate dehydrogenase 1.2.1.12 0.684
4plp NADHomospermidine synthase 2.5.1.44 0.684
1nah NADUDP-glucose 4-epimerase 5.1.3.2 0.683
4xqc NADHomospermidine synthase 2.5.1.44 0.683
1j49 NADD-lactate dehydrogenase 1.1.1.28 0.682
4k9d NADGlyceraldehyde-3-phosphate dehydrogenase 1.2.1.12 0.682
4tvb NADHomospermidine synthase 2.5.1.44 0.682
3pym NADGlyceraldehyde-3-phosphate dehydrogenase 3 1.2.1.12 0.681
3wle NAD(R)-specific carbonyl reductase / 0.681
1pjc NADAlanine dehydrogenase / 0.680
2dbz NAPGlyoxylate reductase 1.1.1.26 0.679
2p9c NAID-3-phosphoglycerate dehydrogenase 1.1.1.95 0.679
3nlc FADUncharacterized protein / 0.679
4e5m NAPPhosphonate dehydrogenase 1.20.1.1 0.679
1guy NADMalate dehydrogenase / 0.678
1gv0 NADMalate dehydrogenase / 0.677
1uxj NADMalate dehydrogenase / 0.677
1uxk NADMalate dehydrogenase / 0.677
4j2w FADKynurenine 3-monooxygenase / 0.676
3nt4 NAIInositol 2-dehydrogenase/D-chiro-inositol 3-dehydrogenase 1.1.1.18 0.675
4dl9 NADS-(hydroxymethyl)glutathione dehydrogenase / 0.674
4jnk NAIL-lactate dehydrogenase A chain 1.1.1.27 0.672
4xrg NADHomospermidine synthase 2.5.1.44 0.671
1h2h NADL-aspartate dehydrogenase 1.4.1.21 0.670
1t2d NADL-lactate dehydrogenase 1.1.1.27 0.670
1u8f NADGlyceraldehyde-3-phosphate dehydrogenase 1.2.1.12 0.670
1b3r NADAdenosylhomocysteinase 3.3.1.1 0.669
1mp0 NADAlcohol dehydrogenase class-3 1.1.1.1 0.669
1pl6 NADSorbitol dehydrogenase 1.1.1.14 0.668
2p9g NAID-3-phosphoglycerate dehydrogenase 1.1.1.95 0.668
3v1y NADGlyceraldehyde-3-phosphate dehydrogenase 1, cytosolic 1.2.1.12 0.668
1gad NADGlyceraldehyde-3-phosphate dehydrogenase A / 0.667
2vhw NAIAlanine dehydrogenase 1.4.1.1 0.667
3gvi ADPMalate dehydrogenase / 0.667
1pl8 NADSorbitol dehydrogenase 1.1.1.14 0.666
2dph NADFormaldehyde dismutase / 0.666
2g82 NADGlyceraldehyde-3-phosphate dehydrogenase / 0.666
2dvm NAD439aa long hypothetical malate oxidoreductase (NAD) [malic enzyme] / 0.665
4ebf NADPhosphonate dehydrogenase 1.20.1.1 0.665
4ng5 NAJAlcohol dehydrogenase E chain 1.1.1.1 0.665
5mdh NADMalate dehydrogenase, cytoplasmic 1.1.1.37 0.665
3oc4 FADOxidoreductase, pyridine nucleotide-disulfide family / 0.664
4okn NAIL-lactate dehydrogenase A chain 1.1.1.27 0.664
5kje NAJAlcohol dehydrogenase E chain 1.1.1.1 0.664
3n7u NADFormate dehydrogenase, chloroplastic/mitochondrial / 0.663
4j33 FADKynurenine 3-monooxygenase / 0.663
4jk3 NADUncharacterized protein / 0.663
2aa3 AP0L-lactate dehydrogenase / 0.662
2fn7 NADLactate dehydrogenase, adjacent gene encodes predicted malate dehydrogenase / 0.662
2yvg NADFerredoxin reductase / 0.662
4nd4 NADLactate dehydrogenase, adjacent gene encodes predicted malate dehydrogenase / 0.662
1m76 NADHydroxyacyl-coenzyme A dehydrogenase, mitochondrial 1.1.1.35 0.661
3keo NADRedox-sensing transcriptional repressor Rex / 0.661
4nd3 NADLactate dehydrogenase, adjacent gene encodes predicted malate dehydrogenase / 0.661
1nai NADUDP-glucose 4-epimerase 5.1.3.2 0.659
1pzh NADLactate dehydrogenase / 0.659
1p1h NADInositol-3-phosphate synthase 5.5.1.4 0.658
1y8q ATPSUMO-activating enzyme subunit 2 6.3.2 0.658
2dfv NADL-threonine 3-dehydrogenase / 0.658
2vhx NADAlanine dehydrogenase 1.4.1.1 0.657
4rsl FADFructosyl peptide oxidase / 0.657
5c7o NADGlyceraldehyde-3-phosphate dehydrogenase, testis-specific 1.2.1.12 0.657
1cdo NADAlcohol dehydrogenase 1 1.1.1.1 0.656
1lld NADL-lactate dehydrogenase 2 1.1.1.27 0.656
1szj NADGlyceraldehyde-3-phosphate dehydrogenase 1.2.1.12 0.656
1y7t NDPMalate dehydrogenase / 0.656
2gr0 ADPFerredoxin reductase / 0.656
4emi NADToluene 1,2-dioxygenase system ferredoxin--NAD(+) reductase component 1.18.1.3 0.656
4rls NAIL-lactate dehydrogenase A chain 1.1.1.27 0.656
5cds NAJAlcohol dehydrogenase E chain 1.1.1.1 0.656
1ywg NADGlyceraldehyde-3-phosphate dehydrogenase / 0.655
2npx NADNADH peroxidase 1.11.1.1 0.655
1f8f NADBenzyl alcohol dehydrogenase / 0.654
1mgo NADAlcohol dehydrogenase E chain 1.1.1.1 0.653
2a92 NAIL-lactate dehydrogenase / 0.653
4nfs NAJAlcohol dehydrogenase E chain 1.1.1.1 0.653
5kcp NAJAlcohol dehydrogenase E chain 1.1.1.1 0.653
5kjc NAJAlcohol dehydrogenase E chain 1.1.1.1 0.653
5kjf NAJAlcohol dehydrogenase E chain 1.1.1.1 0.653
3ggo NAIPrephenate dehydrogenase / 0.652
3lov FADProtoporphyrinogen oxidase / 0.652
4k28 NADShikimate dehydrogenase family protein / 0.652
5g3t FDAFlavin-dependent L-tryptophan oxidase VioA / 0.652
1u3v NADAlcohol dehydrogenase 1B 1.1.1.1 0.651
1znq NADGlyceraldehyde-3-phosphate dehydrogenase 1.2.1.12 0.651
3kb6 NADD-lactate dehydrogenase / 0.651
4tm3 FADKtzI / 0.651
2w2l NADD-mandelate dehydrogenase / 0.650