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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
3nt4 NAI Inositol 2-dehydrogenase/D-chiro-inositol 3-dehydrogenase 1.1.1.18

Complex with similar interaction patterns:

PDB ID HET Uniprot Name EC Number Binding Mode
Similarity		 Align
3nt4 NAIInositol 2-dehydrogenase/D-chiro-inositol 3-dehydrogenase 1.1.1.18 0.930
3nt2 NADInositol 2-dehydrogenase/D-chiro-inositol 3-dehydrogenase 1.1.1.18 0.810
3adp NAILambda-crystallin 1.1.1.45 0.709
3ec7 NADInositol 2-dehydrogenase / 0.707
3d64 NADAdenosylhomocysteinase / 0.702
3pqf NADL-lactate dehydrogenase 1.1.1.27 0.697
4j43 NADUncharacterized protein / 0.694
2dt5 NADRedox-sensing transcriptional repressor Rex / 0.690
2g5c NADPrephenate dehydrogenase / 0.690
3jyp NADQuinate/shikimate dehydrogenase (NAD(+)) / 0.689
3ggo NAIPrephenate dehydrogenase / 0.686
3nt2 NAIInositol 2-dehydrogenase/D-chiro-inositol 3-dehydrogenase 1.1.1.18 0.686
1c1d NAIPhenylalanine dehydrogenase / 0.685
2vhw NAIAlanine dehydrogenase 1.4.1.1 0.684
1wwk NAD307aa long hypothetical phosphoglycerate dehydrogenase / 0.683
4e5k NADPhosphonate dehydrogenase 1.20.1.1 0.682
5c7o NADGlyceraldehyde-3-phosphate dehydrogenase, testis-specific 1.2.1.12 0.680
1o6z NADMalate dehydrogenase / 0.679
2voj NADAlanine dehydrogenase 1.4.1.1 0.678
4tvb NADHomospermidine synthase 2.5.1.44 0.678
1t2c NAIL-lactate dehydrogenase 1.1.1.27 0.677
3cmc NADGlyceraldehyde-3-phosphate dehydrogenase / 0.677
3jyo NADQuinate/shikimate dehydrogenase (NAD(+)) / 0.677
4jk3 NADUncharacterized protein / 0.677
4xrg NADHomospermidine synthase 2.5.1.44 0.676
1hku NADC-terminal-binding protein 1 1.1.1 0.675
2vhz NAIAlanine dehydrogenase 1.4.1.1 0.675
4j49 NADUncharacterized protein / 0.675
2g76 NADD-3-phosphoglycerate dehydrogenase 1.1.1.95 0.674
3pym NADGlyceraldehyde-3-phosphate dehydrogenase 3 1.2.1.12 0.674
1bw9 NADPhenylalanine dehydrogenase / 0.673
4k28 NADShikimate dehydrogenase family protein / 0.673
4ebf NADPhosphonate dehydrogenase 1.20.1.1 0.672
4lsm NADGlyceraldehyde-3-phosphate dehydrogenase / 0.672
1f17 NAIHydroxyacyl-coenzyme A dehydrogenase, mitochondrial 1.1.1.35 0.671
1guy NADMalate dehydrogenase / 0.671
1j5p NADL-aspartate dehydrogenase 1.4.1.21 0.671
1m76 NADHydroxyacyl-coenzyme A dehydrogenase, mitochondrial 1.1.1.35 0.671
2ixa NADAlpha-N-acetylgalactosaminidase 3.2.1.49 0.671
2vhx NADAlanine dehydrogenase 1.4.1.1 0.671
4lcj NADC-terminal-binding protein 2 / 0.671
3d4p NADL-lactate dehydrogenase 1 1.1.1.27 0.670
2aa3 AP0L-lactate dehydrogenase / 0.669
4o59 NADGlyceraldehyde-3-phosphate dehydrogenase 1.2.1.12 0.669
1hyh NADL-2-hydroxyisocaproate dehydrogenase / 0.668
3f3s NADLambda-crystallin homolog / 0.668
3x2f NAIAdenosylhomocysteinase / 0.668
1pl8 NADSorbitol dehydrogenase 1.1.1.14 0.667
1vc2 NADGlyceraldehyde-3-phosphate dehydrogenase / 0.667
1vsv NADGlyceraldehyde-3-phosphate dehydrogenase / 0.667
3wsw NADL-lactate dehydrogenase / 0.667
1dxy NADD-2-hydroxyisocaproate dehydrogenase 1.1.1 0.666
1lld NADL-lactate dehydrogenase 2 1.1.1.27 0.666
4jji NADAlcohol dehydrogenase class-3 / 0.666
1bdm NAXMalate dehydrogenase / 0.664
1p1h NADInositol-3-phosphate synthase 5.5.1.4 0.664
1yl7 NAI4-hydroxy-tetrahydrodipicolinate reductase / 0.664
3x2e NAIAdenosylhomocysteinase / 0.664
2ep7 NADGlyceraldehyde-3-phosphate dehydrogenase / 0.663
2ixb NADAlpha-N-acetylgalactosaminidase 3.2.1.49 0.663
3jyq NADQuinate/shikimate dehydrogenase (NAD(+)) / 0.663
4j49 NAIUncharacterized protein / 0.663
1jki NAIInositol-3-phosphate synthase 5.5.1.4 0.662
1npt NADGlyceraldehyde-3-phosphate dehydrogenase / 0.662
1pjc NADAlanine dehydrogenase / 0.662
2gsd NADFormate dehydrogenase / 0.660
5a1t NAIL-lactate dehydrogenase / 0.660
1gd1 NADGlyceraldehyde-3-phosphate dehydrogenase / 0.659
1u8f NADGlyceraldehyde-3-phosphate dehydrogenase 1.2.1.12 0.659
1yba NADD-3-phosphoglycerate dehydrogenase 1.1.1.95 0.659
3dbv NADGlyceraldehyde-3-phosphate dehydrogenase / 0.659
1h2h NADL-aspartate dehydrogenase 1.4.1.21 0.658
3ggp NADPrephenate dehydrogenase / 0.658
3ids NADGlyceraldehyde-3-phosphate dehydrogenase, glycosomal 1.2.1.12 0.658
4xqc NADHomospermidine synthase 2.5.1.44 0.658
1il0 NADHydroxyacyl-coenzyme A dehydrogenase, mitochondrial 1.1.1.35 0.657
3keo NADRedox-sensing transcriptional repressor Rex / 0.657
4xb2 NDP319aa long hypothetical homoserine dehydrogenase / 0.657
5lc1 NADL-threonine 3-dehydrogenase / 0.657
3ntq NADInositol 2-dehydrogenase/D-chiro-inositol 3-dehydrogenase 1.1.1.18 0.656
2a92 NAIL-lactate dehydrogenase / 0.655
2vhv NAIAlanine dehydrogenase 1.4.1.1 0.655
3doc NADGlyceraldehyde-3-phosphate dehydrogenase / 0.655
3oa2 NADUDP-N-acetyl-2-amino-2-deoxy-D-glucuronate oxidase / 0.655
4nd4 NADLactate dehydrogenase, adjacent gene encodes predicted malate dehydrogenase / 0.655
1emd NADMalate dehydrogenase / 0.654
1gz4 ATPNAD-dependent malic enzyme, mitochondrial 1.1.1.38 0.654
1i2b NADUDP-sulfoquinovose synthase, chloroplastic 3.13.1.1 0.654
1mp0 NADAlcohol dehydrogenase class-3 1.1.1.1 0.654
1szj NADGlyceraldehyde-3-phosphate dehydrogenase 1.2.1.12 0.654
1ie3 NADMalate dehydrogenase / 0.653
1sc6 NADD-3-phosphoglycerate dehydrogenase 1.1.1.95 0.653
2jcv NDP1-deoxy-D-xylulose 5-phosphate reductoisomerase / 0.653
3cif NADGlyceraldehyde-3-phosphate dehydrogenase / 0.653
4nu5 NADPhosphonate dehydrogenase 1.20.1.1 0.653
4nzh FADL-ornithine N(5)-monooxygenase / 0.653
1hdg NADGlyceraldehyde-3-phosphate dehydrogenase / 0.652
1pl6 NADSorbitol dehydrogenase 1.1.1.14 0.652
1t2d NADL-lactate dehydrogenase 1.1.1.27 0.652
2dc1 NADProbable L-aspartate dehydrogenase / 0.652
3b20 NADGlyceraldehyde-3-phosphate dehydrogenase / 0.652
4i1i NADMalate dehydrogenase / 0.652
4wlo NAIMalate dehydrogenase, mitochondrial 1.1.1.37 0.652
1dss NADGlyceraldehyde-3-phosphate dehydrogenase 1.2.1.12 0.651
2g82 NADGlyceraldehyde-3-phosphate dehydrogenase / 0.651
2ome NADC-terminal-binding protein 2 / 0.651
3phi NDPShikimate dehydrogenase (NADP(+)) / 0.651
4e5p NADPhosphonate dehydrogenase 1.20.1.1 0.651
4k9d NADGlyceraldehyde-3-phosphate dehydrogenase 1.2.1.12 0.651
4ros APRMalate dehydrogenase / 0.651
1jnz FADAdenylylsulfate reductase, subunit A (AprA) / 0.650
1xcb NADRedox-sensing transcriptional repressor Rex / 0.650