Logo scPDB

sc-PDB

An Annotated Database of Druggable Binding Sites from the Protein DataBank

Logo CNRS Logo Unistra
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
2g76 NAD D-3-phosphoglycerate dehydrogenase 1.1.1.95

Complex with similar interaction patterns:

PDB ID HET Uniprot Name EC Number Binding Mode
Similarity		 Align
2g76 NADD-3-phosphoglycerate dehydrogenase 1.1.1.95 1.148
2o4c NADErythronate-4-phosphate dehydrogenase / 0.894
3oet NADErythronate-4-phosphate dehydrogenase / 0.854
2ekl NADD-3-phosphoglycerate dehydrogenase / 0.831
1psd NADD-3-phosphoglycerate dehydrogenase 1.1.1.95 0.829
1wwk NAD307aa long hypothetical phosphoglycerate dehydrogenase / 0.826
1yba NADD-3-phosphoglycerate dehydrogenase 1.1.1.95 0.823
1dxy NADD-2-hydroxyisocaproate dehydrogenase 1.1.1 0.794
2pa3 NAID-3-phosphoglycerate dehydrogenase 1.1.1.95 0.783
4nd4 NADLactate dehydrogenase, adjacent gene encodes predicted malate dehydrogenase / 0.778
3n7u NADFormate dehydrogenase, chloroplastic/mitochondrial / 0.773
3kb6 NADD-lactate dehydrogenase / 0.766
2p9g NAID-3-phosphoglycerate dehydrogenase 1.1.1.95 0.763
2a94 AP0L-lactate dehydrogenase 1.1.1.27 0.762
4lcj NADC-terminal-binding protein 2 / 0.757
1t2d NADL-lactate dehydrogenase 1.1.1.27 0.755
2p9c NAID-3-phosphoglycerate dehydrogenase 1.1.1.95 0.754
4nd2 A3DLactate dehydrogenase, adjacent gene encodes predicted malate dehydrogenase / 0.751
2oxi NADAlcohol dehydrogenase E chain 1.1.1.1 0.750
4j43 NADUncharacterized protein / 0.750
2vhv NAIAlanine dehydrogenase 1.4.1.1 0.749
4plp NADHomospermidine synthase 2.5.1.44 0.749
1j5p NADL-aspartate dehydrogenase 1.4.1.21 0.744
2voj NADAlanine dehydrogenase 1.4.1.1 0.743
1pzg A3DLactate dehydrogenase / 0.741
1pzf A3DLactate dehydrogenase / 0.740
1sc6 NADD-3-phosphoglycerate dehydrogenase 1.1.1.95 0.737
1a71 NADAlcohol dehydrogenase E chain 1.1.1.1 0.733
1pjc NADAlanine dehydrogenase / 0.733
1hyh NADL-2-hydroxyisocaproate dehydrogenase / 0.732
3wsw NADL-lactate dehydrogenase / 0.732
4z0p NDPNAD-dependent dehydrogenase / 0.732
5kjf NAJAlcohol dehydrogenase E chain 1.1.1.1 0.732
2p9e NAID-3-phosphoglycerate dehydrogenase 1.1.1.95 0.731
3cos NADAlcohol dehydrogenase 4 1.1.1.1 0.731
1lde NADAlcohol dehydrogenase E chain 1.1.1.1 0.730
2dt5 NADRedox-sensing transcriptional repressor Rex / 0.730
4xyb NDPFormate dehydrogenase / 0.729
4njo NADD-3-phosphoglycerate dehydrogenase, putative / 0.727
4xq9 NADHomospermidine synthase 2.5.1.44 0.727
1hku NADC-terminal-binding protein 1 1.1.1 0.726
4j49 NADUncharacterized protein / 0.724
2hu2 NADC-terminal binding protein 1 / 0.722
4oaq NDPR-specific carbonyl reductase / 0.722
1o6z NADMalate dehydrogenase / 0.721
5bqf NAPProbable hydroxyacid dehydrogenase protein / 0.721
2ome NADC-terminal-binding protein 2 / 0.720
3jyp NADQuinate/shikimate dehydrogenase (NAD(+)) / 0.720
2ohx NADAlcohol dehydrogenase E chain 1.1.1.1 0.719
4tvb NADHomospermidine synthase 2.5.1.44 0.719
4weq NAPNAD-dependent dehydrogenase / 0.719
4xcv NDPProbable hydroxyacid dehydrogenase protein / 0.719
4xrg NADHomospermidine synthase 2.5.1.44 0.719
1mgo NADAlcohol dehydrogenase E chain 1.1.1.1 0.717
2dbr NAPGlyoxylate reductase 1.1.1.26 0.717
2fn7 NADLactate dehydrogenase, adjacent gene encodes predicted malate dehydrogenase / 0.717
3cin NADMyo-inositol-1-phosphate synthase-related protein / 0.717
3jyo NADQuinate/shikimate dehydrogenase (NAD(+)) / 0.717
3jv7 NADSecondary alcohol dehydrogenase / 0.716
4e5p NADPhosphonate dehydrogenase 1.20.1.1 0.716
4nu5 NADPhosphonate dehydrogenase 1.20.1.1 0.714
5kjc NAJAlcohol dehydrogenase E chain 1.1.1.1 0.711
1uxk NADMalate dehydrogenase / 0.710
3wv7 ADPHmd co-occurring protein HcgE / 0.708
4wlv NADMalate dehydrogenase, mitochondrial 1.1.1.37 0.707
1pl6 NADSorbitol dehydrogenase 1.1.1.14 0.706
1t2c NAIL-lactate dehydrogenase 1.1.1.27 0.706
4e5m NAPPhosphonate dehydrogenase 1.20.1.1 0.706
1lld NADL-lactate dehydrogenase 2 1.1.1.27 0.705
3baz NAPHydroxyphenylpyruvate reductase 1.1.1.237 0.705
4nd3 NADLactate dehydrogenase, adjacent gene encodes predicted malate dehydrogenase / 0.705
5lc1 NADL-threonine 3-dehydrogenase / 0.703
1h2b NAJNAD-dependent alcohol dehydrogenase / 0.702
1kol NADGlutathione-independent formaldehyde dehydrogenase / 0.702
2vhx NADAlanine dehydrogenase 1.4.1.1 0.702
3ec7 NADInositol 2-dehydrogenase / 0.702
4b7x NAPProbable oxidoreductase / 0.702
4j49 NAIUncharacterized protein / 0.702
2aa3 AP0L-lactate dehydrogenase / 0.701
4e5k NADPhosphonate dehydrogenase 1.20.1.1 0.701
4e5n NADPhosphonate dehydrogenase 1.20.1.1 0.701
1e6w NAD3-hydroxyacyl-CoA dehydrogenase type-2 1.1.1.35 0.700
1het NADAlcohol dehydrogenase E chain 1.1.1.1 0.700
2vhz NAIAlanine dehydrogenase 1.4.1.1 0.700
2d8a NADL-threonine 3-dehydrogenase / 0.698
3had NADHydroxyacyl-coenzyme A dehydrogenase, mitochondrial 1.1.1.35 0.698
1e3w NAD3-hydroxyacyl-CoA dehydrogenase type-2 1.1.1.35 0.695
4nfh NAJAlcohol dehydrogenase E chain 1.1.1.1 0.692
4wji NAPPutative cyclohexadienyl dehydrogenase and ADH prephenate dehydrogenase / 0.692
5kj6 NAJAlcohol dehydrogenase E chain 1.1.1.1 0.692
4wct FADFructosyl amine:oxygen oxidoreductase / 0.691
3jyq NADQuinate/shikimate dehydrogenase (NAD(+)) / 0.690
4nu6 NADPhosphonate dehydrogenase 1.20.1.1 0.690
1bw9 NADPhenylalanine dehydrogenase / 0.689
5dt9 NADErythronate-4-phosphate dehydrogenase / 0.689
1x7d NADPutative ornithine cyclodeaminase / 0.688
4xd2 NAIAlcohol dehydrogenase E chain 1.1.1.1 0.687
1sow NADL-lactate dehydrogenase 1.1.1.27 0.686
2a92 NAIL-lactate dehydrogenase / 0.685
2yut NAPPutative short-chain oxidoreductase / 0.685
1mp0 NADAlcohol dehydrogenase class-3 1.1.1.1 0.684
3kbo NDPGlyoxylate/hydroxypyruvate reductase A / 0.684
4xb1 NDP319aa long hypothetical homoserine dehydrogenase / 0.684
1j49 NADD-lactate dehydrogenase 1.1.1.28 0.683
4ng5 NAJAlcohol dehydrogenase E chain 1.1.1.1 0.683
1hsz NADAlcohol dehydrogenase 1B 1.1.1.1 0.682
2ejv NADL-threonine 3-dehydrogenase / 0.682
3h3j NADL-lactate dehydrogenase 1 1.1.1.27 0.682
4j4b NAIUncharacterized protein / 0.682
1axg NADAlcohol dehydrogenase E chain 1.1.1.1 0.681
1heu NADAlcohol dehydrogenase E chain 1.1.1.1 0.681
1yqd NAPSinapyl alcohol dehydrogenase / 0.678
4nfs NAJAlcohol dehydrogenase E chain 1.1.1.1 0.678
5kcz NAJAlcohol dehydrogenase E chain 1.1.1.1 0.678
1uxj NADMalate dehydrogenase / 0.677
2hdh NADHydroxyacyl-coenzyme A dehydrogenase, mitochondrial 1.1.1.35 0.677
2q1w NADPutative nucleotide sugar epimerase/ dehydratase / 0.677
3qvx NADMyo-inositol-1-phosphate synthase (Ino1) / 0.677
4jk3 NADUncharacterized protein / 0.677
1r37 NADNAD-dependent alcohol dehydrogenase 1.1.1.1 0.676
4yr9 NADL-threonine 3-dehydrogenase, mitochondrial 1.1.1.103 0.676
5a1t NAIL-lactate dehydrogenase / 0.676
2dc1 NADProbable L-aspartate dehydrogenase / 0.675
2dfv NADL-threonine 3-dehydrogenase / 0.675
2fzw NADAlcohol dehydrogenase class-3 1.1.1.1 0.675
2wsb NADGalactitol dehydrogenase / 0.675
1h2h NADL-aspartate dehydrogenase 1.4.1.21 0.674
2o23 NAD3-hydroxyacyl-CoA dehydrogenase type-2 1.1.1.35 0.674
2vhw NAIAlanine dehydrogenase 1.4.1.1 0.674
3nt2 NADInositol 2-dehydrogenase/D-chiro-inositol 3-dehydrogenase 1.1.1.18 0.674
3nt4 NAIInositol 2-dehydrogenase/D-chiro-inositol 3-dehydrogenase 1.1.1.18 0.674
4bv9 NDPKetimine reductase mu-crystallin 1.5.1.25 0.674
1u7h NADPutative ornithine cyclodeaminase / 0.673
2jhf NADAlcohol dehydrogenase E chain 1.1.1.1 0.672
4nbt NAD3-oxoacyl-[acyl-carrier-protein] reductase / 0.672
3abi NADUncharacterized protein / 0.671
3w6u NAP6-phosphogluconate dehydrogenase, NAD-binding protein / 0.671
4k28 NADShikimate dehydrogenase family protein / 0.671
2ldb NADL-lactate dehydrogenase 1.1.1.27 0.670
2nad NADFormate dehydrogenase / 0.670
2c20 NADUDP-glucose 4-epimerase / 0.669
3qv1 NADGlyceraldehyde-3-phosphate dehydrogenase GAPA1, chloroplastic 1.2.1.13 0.669
1hf3 NADAlcohol dehydrogenase E chain 1.1.1.1 0.668
1i2b NADUDP-sulfoquinovose synthase, chloroplastic 3.13.1.1 0.668
1yqx NAPSinapyl alcohol dehydrogenase / 0.668
2y05 NAPProstaglandin reductase 1 / 0.668
3gvi ADPMalate dehydrogenase / 0.668
5kje NAJAlcohol dehydrogenase E chain 1.1.1.1 0.668
2dbz NAPGlyoxylate reductase 1.1.1.26 0.667
2q3e NAIUDP-glucose 6-dehydrogenase 1.1.1.22 0.667
3pvz NADUDP-N-acetylglucosamine 4,6-dehydratase / 0.667
4cpd NADAlcohol dehydrogenase / 0.667
4hfm NAP2-alkenal reductase (NADP(+)-dependent) / 0.667
5kcp NAJAlcohol dehydrogenase E chain 1.1.1.1 0.667
1il0 NADHydroxyacyl-coenzyme A dehydrogenase, mitochondrial 1.1.1.35 0.666
3d64 NADAdenosylhomocysteinase / 0.666
3o9z NADLipopolysaccaride biosynthesis protein wbpB / 0.666
4mdh NADMalate dehydrogenase, cytoplasmic 1.1.1.37 0.666
2yy7 NADL-threonine dehydrogenase / 0.665
3qvt NAIMyo-inositol-1-phosphate synthase (Ino1) / 0.665
4dbv NDPGlyceraldehyde-3-phosphate dehydrogenase / 0.665
5bsg NAPPyrroline-5-carboxylate reductase / 0.665
1axe NADAlcohol dehydrogenase E chain 1.1.1.1 0.664
1pzh NADLactate dehydrogenase / 0.664
2gsd NADFormate dehydrogenase / 0.664
3ing NDPHomoserine dehydrogenase related protein / 0.664
1nah NADUDP-glucose 4-epimerase 5.1.3.2 0.663
3pef NAPGlyoxalate/3-oxopropanoate/4-oxobutanoate reductase / 0.663
4xb2 NDP319aa long hypothetical homoserine dehydrogenase / 0.662
5cdg NAJAlcohol dehydrogenase E chain 1.1.1.1 0.661
6adh NADAlcohol dehydrogenase E chain 1.1.1.1 0.661
1dss NADGlyceraldehyde-3-phosphate dehydrogenase 1.2.1.12 0.660
1pl8 NADSorbitol dehydrogenase 1.1.1.14 0.660
1u8x NADMaltose-6'-phosphate glucosidase 3.2.1.122 0.660
2dph NADFormaldehyde dismutase / 0.660
2ep7 NADGlyceraldehyde-3-phosphate dehydrogenase / 0.660
2g5c NADPrephenate dehydrogenase / 0.660
3rj5 NADAlcohol dehydrogenase 1.1.1.1 0.660
4dl9 NADS-(hydroxymethyl)glutathione dehydrogenase / 0.660
1ht0 NADAlcohol dehydrogenase 1C 1.1.1.1 0.659
1vc2 NADGlyceraldehyde-3-phosphate dehydrogenase / 0.659
1cdo NADAlcohol dehydrogenase 1 1.1.1.1 0.658
1n2s NAIdTDP-4-dehydrorhamnose reductase 1.1.1.133 0.658
2c29 NAPDihydroflavonol 4-reductase / 0.658
1ie3 NADMalate dehydrogenase / 0.657
1u3v NADAlcohol dehydrogenase 1B 1.1.1.1 0.657
1yl7 NAI4-hydroxy-tetrahydrodipicolinate reductase / 0.657
4dwv NAJAlcohol dehydrogenase E chain 1.1.1.1 0.657
4wlu NADMalate dehydrogenase, mitochondrial 1.1.1.37 0.657
1i3l NADUDP-glucose 4-epimerase / 0.656
1ib6 NADMalate dehydrogenase / 0.656
1yjq NAP2-dehydropantoate 2-reductase 1.1.1.169 0.656
2i9p NAD3-hydroxyisobutyrate dehydrogenase, mitochondrial 1.1.1.31 0.656
4jbi NDPAlcohol dehydrogenase (Zinc) / 0.656
5cds NAJAlcohol dehydrogenase E chain 1.1.1.1 0.656
1nqa NADGlyceraldehyde-3-phosphate dehydrogenase / 0.655
2gdz NAD15-hydroxyprostaglandin dehydrogenase [NAD(+)] 1.1.1.141 0.655
3cif NADGlyceraldehyde-3-phosphate dehydrogenase / 0.655
3two NDPMannitol dehydrogenase / 0.655
3wv8 ATPHmd co-occurring protein HcgE / 0.655
1e5q NDPSaccharopine dehydrogenase [NADP(+), L-glutamate-forming] 1.5.1.10 0.654
1zmd NAIDihydrolipoyl dehydrogenase, mitochondrial 1.8.1.4 0.654
2x6t NAPADP-L-glycero-D-manno-heptose-6-epimerase / 0.654
4cr8 NADN-acylmannosamine 1-dehydrogenase 1.1.1.233 0.654
4y0k NAPAntE / 0.654
5aq1 NDPGlucose-6-phosphate 1-dehydrogenase / 0.654
1wp4 NDP3-hydroxyisobutyrate dehydrogenase / 0.653
3ruc NADUDP-N-acetylglucosamine 4-epimerase / 0.653
5ig2 NADShort-chain dehydrogenase/reductase SDR / 0.652
2g82 NADGlyceraldehyde-3-phosphate dehydrogenase / 0.651
3dbv NADGlyceraldehyde-3-phosphate dehydrogenase / 0.651
3dmt NADGlyceraldehyde-3-phosphate dehydrogenase, glycosomal 1.2.1.12 0.651
1lso NADHydroxyacyl-coenzyme A dehydrogenase, mitochondrial 1.1.1.35 0.650
2ixa NADAlpha-N-acetylgalactosaminidase 3.2.1.49 0.650
3tqh NDPQuinone oxidoreductase / 0.650
4l4s NAIL-lactate dehydrogenase A chain 1.1.1.27 0.650