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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
2p9e NAI D-3-phosphoglycerate dehydrogenase 1.1.1.95

Complex with similar interaction patterns:

PDB ID HET Uniprot Name EC Number Binding Mode
Similarity		 Align
2p9e NAID-3-phosphoglycerate dehydrogenase 1.1.1.95 1.036
1yba NADD-3-phosphoglycerate dehydrogenase 1.1.1.95 0.865
2p9g NAID-3-phosphoglycerate dehydrogenase 1.1.1.95 0.802
2pa3 NAID-3-phosphoglycerate dehydrogenase 1.1.1.95 0.782
2p9c NAID-3-phosphoglycerate dehydrogenase 1.1.1.95 0.746
2ekl NADD-3-phosphoglycerate dehydrogenase / 0.735
2g76 NADD-3-phosphoglycerate dehydrogenase 1.1.1.95 0.731
1psd NADD-3-phosphoglycerate dehydrogenase 1.1.1.95 0.721
1t2d NADL-lactate dehydrogenase 1.1.1.27 0.719
1wwk NAD307aa long hypothetical phosphoglycerate dehydrogenase / 0.713
1pzh NADLactate dehydrogenase / 0.704
5a1t NAIL-lactate dehydrogenase / 0.704
1dxy NADD-2-hydroxyisocaproate dehydrogenase 1.1.1 0.703
4wlv NADMalate dehydrogenase, mitochondrial 1.1.1.37 0.701
1t2c NAIL-lactate dehydrogenase 1.1.1.27 0.700
3qvt NAIMyo-inositol-1-phosphate synthase (Ino1) / 0.698
2a94 AP0L-lactate dehydrogenase 1.1.1.27 0.697
1c1d NAIPhenylalanine dehydrogenase / 0.694
4ros APRMalate dehydrogenase / 0.691
4lcj NADC-terminal-binding protein 2 / 0.689
3qvw NADMyo-inositol-1-phosphate synthase (Ino1) / 0.687
3oet NADErythronate-4-phosphate dehydrogenase / 0.686
4xyb NDPFormate dehydrogenase / 0.685
2a92 NAIL-lactate dehydrogenase / 0.683
4b7x NAPProbable oxidoreductase / 0.683
5dt9 NADErythronate-4-phosphate dehydrogenase / 0.683
1sc6 NADD-3-phosphoglycerate dehydrogenase 1.1.1.95 0.682
4pxz CLRP2Y purinoceptor 12 / 0.682
2vhw NAIAlanine dehydrogenase 1.4.1.1 0.679
3kb6 NADD-lactate dehydrogenase / 0.679
4l4s NAIL-lactate dehydrogenase A chain 1.1.1.27 0.678
1bdm NAXMalate dehydrogenase / 0.677
2jhf NADAlcohol dehydrogenase E chain 1.1.1.1 0.677
1j5p NADL-aspartate dehydrogenase 1.4.1.21 0.676
2fn7 NADLactate dehydrogenase, adjacent gene encodes predicted malate dehydrogenase / 0.676
2x0i NAIMalate dehydrogenase / 0.675
4nd2 A3DLactate dehydrogenase, adjacent gene encodes predicted malate dehydrogenase / 0.674
4nd4 NADLactate dehydrogenase, adjacent gene encodes predicted malate dehydrogenase / 0.674
5kcp NAJAlcohol dehydrogenase E chain 1.1.1.1 0.674
1het NADAlcohol dehydrogenase E chain 1.1.1.1 0.671
1x7d NADPutative ornithine cyclodeaminase / 0.671
3nug NADPyridoxal 4-dehydrogenase 1.1.1.107 0.671
1j49 NADD-lactate dehydrogenase 1.1.1.28 0.670
1r37 NADNAD-dependent alcohol dehydrogenase 1.1.1.1 0.669
1ib6 NADMalate dehydrogenase / 0.668
2yy7 NADL-threonine dehydrogenase / 0.667
1sow NADL-lactate dehydrogenase 1.1.1.27 0.666
2b69 NADUDP-glucuronic acid decarboxylase 1 4.1.1.35 0.666
1orr NADCDP-paratose 2-epimerase / 0.665
2o4c NADErythronate-4-phosphate dehydrogenase / 0.665
3a4v NADNDP-sugar epimerase / 0.665
2dfd NADMalate dehydrogenase, mitochondrial 1.1.1.37 0.664
5bsg NAPPyrroline-5-carboxylate reductase / 0.664
3cos NADAlcohol dehydrogenase 4 1.1.1.1 0.663
4wlu NADMalate dehydrogenase, mitochondrial 1.1.1.37 0.663
3ndr NADPyridoxal 4-dehydrogenase 1.1.1.107 0.662
1uxj NADMalate dehydrogenase / 0.661
1xse NDPCorticosteroid 11-beta-dehydrogenase isozyme 1 1.1.1.146 0.661
2q3e NAIUDP-glucose 6-dehydrogenase 1.1.1.22 0.661
3ru7 NADUDP-N-acetylglucosamine 4-epimerase / 0.661
4c4o NADSADH / 0.661
3ehe NADUDP-glucose 4-epimerase (GalE-1) / 0.660
4wlo NAIMalate dehydrogenase, mitochondrial 1.1.1.37 0.660
4xd2 NAIAlcohol dehydrogenase E chain 1.1.1.1 0.660
4xye NADFormate dehydrogenase / 0.660
2d1y NADOxidoreductase, short-chain dehydrogenase/reductase family / 0.659
4okn NAIL-lactate dehydrogenase A chain 1.1.1.27 0.659
4py0 6ATP2Y purinoceptor 12 / 0.659
2hrb NAPCarbonyl reductase [NADPH] 3 1.1.1.184 0.658
4e5n NADPhosphonate dehydrogenase 1.20.1.1 0.658
4j4b NAIUncharacterized protein / 0.658
2vhz NAIAlanine dehydrogenase 1.4.1.1 0.657
1heu NADAlcohol dehydrogenase E chain 1.1.1.1 0.656
2vhx NADAlanine dehydrogenase 1.4.1.1 0.656
3orf NADDihydropteridine reductase 1.5.1.34 0.656
4nu5 NADPhosphonate dehydrogenase 1.20.1.1 0.655
1yqx NAPSinapyl alcohol dehydrogenase / 0.654
3d4p NADL-lactate dehydrogenase 1 1.1.1.27 0.654
4j49 NADUncharacterized protein / 0.654
4tvb NADHomospermidine synthase 2.5.1.44 0.654
1hld NADAlcohol dehydrogenase E chain 1.1.1.1 0.653
4e5m NAPPhosphonate dehydrogenase 1.20.1.1 0.653
4jk3 NADUncharacterized protein / 0.653
1hdz NADAlcohol dehydrogenase 1B 1.1.1.1 0.652
4j43 NADUncharacterized protein / 0.652
4j49 NAIUncharacterized protein / 0.652
2aa3 AP0L-lactate dehydrogenase / 0.651
3lu1 NADUDP-N-acetylglucosamine 4-epimerase / 0.651
3ruc NADUDP-N-acetylglucosamine 4-epimerase / 0.651
1g1a NADdTDP-glucose 4,6-dehydratase / 0.650
2c0c NAPProstaglandin reductase 3 1 0.650
3fvq ATPFe(3+) ions import ATP-binding protein FbpC / 0.650
3h3j NADL-lactate dehydrogenase 1 1.1.1.27 0.650
3icp NADNAD-dependent epimerase/dehydratase / 0.650
4ki0 ANPMaltose/maltodextrin import ATP-binding protein MalK / 0.650