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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
2ome NAD C-terminal-binding protein 2

Complex with similar interaction patterns:

PDB ID HET Uniprot Name EC Number Binding Mode
Similarity		 Align
2ome NADC-terminal-binding protein 2 / 1.098
1hku NADC-terminal-binding protein 1 1.1.1 0.904
4lcj NADC-terminal-binding protein 2 / 0.816
3oet NADErythronate-4-phosphate dehydrogenase / 0.808
2ekl NADD-3-phosphoglycerate dehydrogenase / 0.765
2o4c NADErythronate-4-phosphate dehydrogenase / 0.764
2hu2 NADC-terminal binding protein 1 / 0.754
1j5p NADL-aspartate dehydrogenase 1.4.1.21 0.745
4e5n NADPhosphonate dehydrogenase 1.20.1.1 0.732
1wwk NAD307aa long hypothetical phosphoglycerate dehydrogenase / 0.728
2g76 NADD-3-phosphoglycerate dehydrogenase 1.1.1.95 0.720
1u8f NADGlyceraldehyde-3-phosphate dehydrogenase 1.2.1.12 0.705
4nd3 NADLactate dehydrogenase, adjacent gene encodes predicted malate dehydrogenase / 0.705
4njo NADD-3-phosphoglycerate dehydrogenase, putative / 0.702
1yba NADD-3-phosphoglycerate dehydrogenase 1.1.1.95 0.698
3jv7 NADSecondary alcohol dehydrogenase / 0.696
1szj NADGlyceraldehyde-3-phosphate dehydrogenase 1.2.1.12 0.695
4e5k NADPhosphonate dehydrogenase 1.20.1.1 0.695
4xrg NADHomospermidine synthase 2.5.1.44 0.695
4tvb NADHomospermidine synthase 2.5.1.44 0.692
3wsw NADL-lactate dehydrogenase / 0.690
3n7u NADFormate dehydrogenase, chloroplastic/mitochondrial / 0.687
3v1y NADGlyceraldehyde-3-phosphate dehydrogenase 1, cytosolic 1.2.1.12 0.687
4j49 NAIUncharacterized protein / 0.687
2g5c NADPrephenate dehydrogenase / 0.686
4hb9 FADUncharacterized protein / 0.686
4k9d NADGlyceraldehyde-3-phosphate dehydrogenase 1.2.1.12 0.686
5ig2 NADShort-chain dehydrogenase/reductase SDR / 0.685
1xcb NADRedox-sensing transcriptional repressor Rex / 0.683
3ec7 NADInositol 2-dehydrogenase / 0.682
4j4b NAIUncharacterized protein / 0.682
3cos NADAlcohol dehydrogenase 4 1.1.1.1 0.681
3pym NADGlyceraldehyde-3-phosphate dehydrogenase 3 1.2.1.12 0.681
2oxi NADAlcohol dehydrogenase E chain 1.1.1.1 0.680
1c1d NAIPhenylalanine dehydrogenase / 0.679
4nd4 NADLactate dehydrogenase, adjacent gene encodes predicted malate dehydrogenase / 0.679
4nu5 NADPhosphonate dehydrogenase 1.20.1.1 0.679
4jnk NAIL-lactate dehydrogenase A chain 1.1.1.27 0.678
1psd NADD-3-phosphoglycerate dehydrogenase 1.1.1.95 0.677
4xq9 NADHomospermidine synthase 2.5.1.44 0.677
3cif NADGlyceraldehyde-3-phosphate dehydrogenase / 0.676
1ht0 NADAlcohol dehydrogenase 1C 1.1.1.1 0.675
4o59 NADGlyceraldehyde-3-phosphate dehydrogenase 1.2.1.12 0.675
2p9c NAID-3-phosphoglycerate dehydrogenase 1.1.1.95 0.673
2pa3 NAID-3-phosphoglycerate dehydrogenase 1.1.1.95 0.673
1r37 NADNAD-dependent alcohol dehydrogenase 1.1.1.1 0.672
2w2l NADD-mandelate dehydrogenase / 0.672
2wsb NADGalactitol dehydrogenase / 0.672
4cpd NADAlcohol dehydrogenase / 0.672
1f8f NADBenzyl alcohol dehydrogenase / 0.671
1kol NADGlutathione-independent formaldehyde dehydrogenase / 0.671
2ixb NADAlpha-N-acetylgalactosaminidase 3.2.1.49 0.671
4rqu NADAlcohol dehydrogenase class-P / 0.671
1pl8 NADSorbitol dehydrogenase 1.1.1.14 0.670
1ywg NADGlyceraldehyde-3-phosphate dehydrogenase / 0.670
2fje FADAdenylylsulfate reductase, subunit A (AprA) / 0.670
4rls NAIL-lactate dehydrogenase A chain 1.1.1.27 0.670
2ohx NADAlcohol dehydrogenase E chain 1.1.1.1 0.669
3ntq NADInositol 2-dehydrogenase/D-chiro-inositol 3-dehydrogenase 1.1.1.18 0.669
3wle NAD(R)-specific carbonyl reductase / 0.668
1uxj NADMalate dehydrogenase / 0.667
1zmd NAIDihydrolipoyl dehydrogenase, mitochondrial 1.8.1.4 0.667
2aa3 AP0L-lactate dehydrogenase / 0.667
3adp NAILambda-crystallin 1.1.1.45 0.667
3cps NADGlyceraldehyde-3-phosphate dehydrogenase / 0.667
1bw9 NADPhenylalanine dehydrogenase / 0.666
1i2b NADUDP-sulfoquinovose synthase, chloroplastic 3.13.1.1 0.666
1la2 NADInositol-3-phosphate synthase 5.5.1.4 0.666
1t2d NADL-lactate dehydrogenase 1.1.1.27 0.666
2vhz NAIAlanine dehydrogenase 1.4.1.1 0.664
4p8r NADGlyceraldehyde-3-phosphate dehydrogenase / 0.664
4y9d NAIC alpha-dehydrogenase / 0.664
3pqf NADL-lactate dehydrogenase 1.1.1.27 0.663
4dxh NAJAlcohol dehydrogenase E chain 1.1.1.1 0.663
2hun NAD336aa long hypothetical dTDP-glucose 4,6-dehydratase / 0.662
3d64 NADAdenosylhomocysteinase / 0.662
5dt9 NADErythronate-4-phosphate dehydrogenase / 0.661
1j49 NADD-lactate dehydrogenase 1.1.1.28 0.660
1p1h NADInositol-3-phosphate synthase 5.5.1.4 0.660
3m6i NADL-arabinitol 4-dehydrogenase 1.1.1.12 0.660
3gvi ADPMalate dehydrogenase / 0.659
1mgo NADAlcohol dehydrogenase E chain 1.1.1.1 0.658
2gsd NADFormate dehydrogenase / 0.658
4dl9 NADS-(hydroxymethyl)glutathione dehydrogenase / 0.658
4nu6 NADPhosphonate dehydrogenase 1.20.1.1 0.658
4ywj NAD4-hydroxy-tetrahydrodipicolinate reductase / 0.658
1lld NADL-lactate dehydrogenase 2 1.1.1.27 0.657
2a92 NAIL-lactate dehydrogenase / 0.657
2dbz NAPGlyoxylate reductase 1.1.1.26 0.657
2voj NADAlanine dehydrogenase 1.4.1.1 0.657
4l4s NAIL-lactate dehydrogenase A chain 1.1.1.27 0.657
1hld NADAlcohol dehydrogenase E chain 1.1.1.1 0.656
1sc6 NADD-3-phosphoglycerate dehydrogenase 1.1.1.95 0.656
1u8x NADMaltose-6'-phosphate glucosidase 3.2.1.122 0.656
4tm3 FADKtzI / 0.656
4wlu NADMalate dehydrogenase, mitochondrial 1.1.1.37 0.656
1u3v NADAlcohol dehydrogenase 1B 1.1.1.1 0.654
1pjc NADAlanine dehydrogenase / 0.653
1t2c NAIL-lactate dehydrogenase 1.1.1.27 0.653
1hdr NADDihydropteridine reductase 1.5.1.34 0.652
1jki NAIInositol-3-phosphate synthase 5.5.1.4 0.652
3nt4 NAIInositol 2-dehydrogenase/D-chiro-inositol 3-dehydrogenase 1.1.1.18 0.651
1dxy NADD-2-hydroxyisocaproate dehydrogenase 1.1.1 0.650
1gad NADGlyceraldehyde-3-phosphate dehydrogenase A / 0.650
2vhw NAIAlanine dehydrogenase 1.4.1.1 0.650
2x0r NADMalate dehydrogenase / 0.650
2zb3 NDPProstaglandin reductase 2 1.3.1.48 0.650
3ids NADGlyceraldehyde-3-phosphate dehydrogenase, glycosomal 1.2.1.12 0.650