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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
1la2 NAD Inositol-3-phosphate synthase 5.5.1.4

Complex with similar interaction patterns:

PDB ID HET Uniprot Name EC Number Binding Mode
Similarity		 Align
1la2 NADInositol-3-phosphate synthase 5.5.1.4 1.165
1p1h NADInositol-3-phosphate synthase 5.5.1.4 0.840
1p1i NADInositol-3-phosphate synthase 5.5.1.4 0.827
1jki NAIInositol-3-phosphate synthase 5.5.1.4 0.782
3qvw NADMyo-inositol-1-phosphate synthase (Ino1) / 0.769
3qvx NADMyo-inositol-1-phosphate synthase (Ino1) / 0.768
3qvs NADMyo-inositol-1-phosphate synthase (Ino1) / 0.750
3qvt NAIMyo-inositol-1-phosphate synthase (Ino1) / 0.749
3ec7 NADInositol 2-dehydrogenase / 0.730
1j5p NADL-aspartate dehydrogenase 1.4.1.21 0.723
5kcp NAJAlcohol dehydrogenase E chain 1.1.1.1 0.704
1nai NADUDP-glucose 4-epimerase 5.1.3.2 0.703
1x7d NADPutative ornithine cyclodeaminase / 0.699
1u1i NADMyo-inositol-1-phosphate synthase (Ino1) / 0.698
1hku NADC-terminal-binding protein 1 1.1.1 0.697
2hu2 NADC-terminal binding protein 1 / 0.695
1c1d NAIPhenylalanine dehydrogenase / 0.692
3oq6 NAJAlcohol dehydrogenase E chain 1.1.1.1 0.691
5kcz NAJAlcohol dehydrogenase E chain 1.1.1.1 0.690
5kjf NAJAlcohol dehydrogenase E chain 1.1.1.1 0.690
3etg NDPGlutamate dehydrogenase 1, mitochondrial 1.4.1.3 0.689
5kj6 NAJAlcohol dehydrogenase E chain 1.1.1.1 0.689
3orf NADDihydropteridine reductase 1.5.1.34 0.687
3ru9 NADUDP-N-acetylglucosamine 4-epimerase / 0.687
4ng5 NAJAlcohol dehydrogenase E chain 1.1.1.1 0.687
3wv7 ADPHmd co-occurring protein HcgE / 0.686
4xq9 NADHomospermidine synthase 2.5.1.44 0.686
5kj1 NAJAlcohol dehydrogenase E chain 1.1.1.1 0.686
1bw9 NADPhenylalanine dehydrogenase / 0.685
4nfs NAJAlcohol dehydrogenase E chain 1.1.1.1 0.685
4xqc NADHomospermidine synthase 2.5.1.44 0.685
3d64 NADAdenosylhomocysteinase / 0.684
3uko NADAlcohol dehydrogenase class-3 / 0.684
4k28 NADShikimate dehydrogenase family protein / 0.684
4twr NADNAD binding site:NAD-dependent epimerase/dehydratase:UDP-glucose 4-epimerase / 0.682
1b3r NADAdenosylhomocysteinase 3.3.1.1 0.681
1sc6 NADD-3-phosphoglycerate dehydrogenase 1.1.1.95 0.681
3pgx NADUncharacterized NAD-dependent oxidoreductase MAP_4146 / 0.681
3x2f NAIAdenosylhomocysteinase / 0.681
4tvb NADHomospermidine synthase 2.5.1.44 0.681
1hdr NADDihydropteridine reductase 1.5.1.34 0.680
3ids NADGlyceraldehyde-3-phosphate dehydrogenase, glycosomal 1.2.1.12 0.680
1dss NADGlyceraldehyde-3-phosphate dehydrogenase 1.2.1.12 0.679
1u28 NADNAD(P) transhydrogenase subunit alpha part 1 1.6.1.2 0.679
2yy7 NADL-threonine dehydrogenase / 0.679
2p9c NAID-3-phosphoglycerate dehydrogenase 1.1.1.95 0.678
3s55 NADPutative short-chain dehydrogenase/reductase / 0.678
4xwz FADFructosyl amine:oxygen oxidoreductase / 0.678
2ep7 NADGlyceraldehyde-3-phosphate dehydrogenase / 0.677
2vhx NADAlanine dehydrogenase 1.4.1.1 0.677
3pvz NADUDP-N-acetylglucosamine 4,6-dehydratase / 0.677
2g5c NADPrephenate dehydrogenase / 0.676
4dwv NAJAlcohol dehydrogenase E chain 1.1.1.1 0.676
1a71 NADAlcohol dehydrogenase E chain 1.1.1.1 0.675
4dxh NAJAlcohol dehydrogenase E chain 1.1.1.1 0.675
5kje NAJAlcohol dehydrogenase E chain 1.1.1.1 0.675
4e5n NADPhosphonate dehydrogenase 1.20.1.1 0.674
4nfh NAJAlcohol dehydrogenase E chain 1.1.1.1 0.674
5cdg NAJAlcohol dehydrogenase E chain 1.1.1.1 0.674
5cds NAJAlcohol dehydrogenase E chain 1.1.1.1 0.674
1h2h NADL-aspartate dehydrogenase 1.4.1.21 0.673
1psd NADD-3-phosphoglycerate dehydrogenase 1.1.1.95 0.673
1cf3 FADGlucose oxidase 1.1.3.4 0.672
3cif NADGlyceraldehyde-3-phosphate dehydrogenase / 0.672
4a6n FADTetX family tetracycline inactivation enzyme / 0.672
5cdt NAJAlcohol dehydrogenase E chain 1.1.1.1 0.672
1o6z NADMalate dehydrogenase / 0.671
3v1y NADGlyceraldehyde-3-phosphate dehydrogenase 1, cytosolic 1.2.1.12 0.671
2oo5 TXDNAD(P) transhydrogenase subunit alpha part 1 1.6.1.2 0.670
2pzj NADPutative nucleotide sugar epimerase/ dehydratase / 0.670
3qv1 NADGlyceraldehyde-3-phosphate dehydrogenase GAPA1, chloroplastic 1.2.1.13 0.670
3b1j NADGlyceraldehyde-3-phosphate dehydrogenase / 0.669
4xrg NADHomospermidine synthase 2.5.1.44 0.669
1y8q ATPSUMO-activating enzyme subunit 2 6.3.2 0.668
2vhw NAIAlanine dehydrogenase 1.4.1.1 0.668
3q2k NAIProbable oxidoreductase / 0.668
4plp NADHomospermidine synthase 2.5.1.44 0.668
2p9g NAID-3-phosphoglycerate dehydrogenase 1.1.1.95 0.667
2q1w NADPutative nucleotide sugar epimerase/ dehydratase / 0.667
3jyo NADQuinate/shikimate dehydrogenase (NAD(+)) / 0.667
1rsg FADPolyamine oxidase FMS1 / 0.666
1wwk NAD307aa long hypothetical phosphoglycerate dehydrogenase / 0.666
2ome NADC-terminal-binding protein 2 / 0.666
2pa3 NAID-3-phosphoglycerate dehydrogenase 1.1.1.95 0.666
4fn4 NADShort chain dehydrogenase / 0.666
4nec SAHPutative SAM-dependent methyltransferase / 0.666
1u7h NADPutative ornithine cyclodeaminase / 0.665
2ohx NADAlcohol dehydrogenase E chain 1.1.1.1 0.665
2xaa NADSecondary alcohol dehydrogenase / 0.665
5g3t FDAFlavin-dependent L-tryptophan oxidase VioA / 0.665
4i1i NADMalate dehydrogenase / 0.664
3wv8 ATPHmd co-occurring protein HcgE / 0.663
1hld NADAlcohol dehydrogenase E chain 1.1.1.1 0.662
2x0r NADMalate dehydrogenase / 0.662
4wct FADFructosyl amine:oxygen oxidoreductase / 0.662
1ur5 NADMalate dehydrogenase / 0.661
1uxk NADMalate dehydrogenase / 0.661
1u3v NADAlcohol dehydrogenase 1B 1.1.1.1 0.660
3pym NADGlyceraldehyde-3-phosphate dehydrogenase 3 1.2.1.12 0.660
5jr3 SAHCarminomycin 4-O-methyltransferase DnrK 2.1.1.292 0.660
1kvr NADUDP-glucose 4-epimerase 5.1.3.2 0.659
1x14 NADNAD(P) transhydrogenase subunit alpha 1.6.1.2 0.659
2a92 NAIL-lactate dehydrogenase / 0.659
4yai NAIC alpha-dehydrogenase / 0.659
1vc2 NADGlyceraldehyde-3-phosphate dehydrogenase / 0.658
2ji9 ADPOxalyl-CoA decarboxylase 4.1.1.8 0.658
2plw SAMRibosomal RNA methyltransferase, putative / 0.658
3lcc SAHThiocyanate methyltransferase 1 / 0.658
4yag NAIC alpha-dehydrogenase / 0.658
1axe NADAlcohol dehydrogenase E chain 1.1.1.1 0.657
3k7m FAD6-hydroxy-L-nicotine oxidase / 0.657
3ruf NADUDP-N-acetylglucosamine 4-epimerase / 0.657
4k9d NADGlyceraldehyde-3-phosphate dehydrogenase 1.2.1.12 0.657
1ptj SNDNAD(P) transhydrogenase subunit alpha part 1 1.6.1.2 0.656
3grv ADNProbable ribosomal RNA small subunit methyltransferase A / 0.656
4mok FADPyranose 2-oxidase / 0.656
1b8v NADMalate dehydrogenase / 0.655
1lld NADL-lactate dehydrogenase 2 1.1.1.27 0.655
2q1s NAIPutative nucleotide sugar epimerase/ dehydratase / 0.655
3ozt OZZCatechol O-methyltransferase 2.1.1.6 0.655
1u2g APRNAD(P) transhydrogenase subunit alpha part 1 1.6.1.2 0.654
1x15 NADNAD(P) transhydrogenase subunit alpha 1.6.1.2 0.654
2dt5 NADRedox-sensing transcriptional repressor Rex / 0.654
3sx2 NADUncharacterized protein / 0.654
1b8u NADMalate dehydrogenase / 0.653
4poo SAMPutative RNA methylase / 0.653
1t2c NAIL-lactate dehydrogenase 1.1.1.27 0.652
2dfv NADL-threonine 3-dehydrogenase / 0.652
2o06 MTASpermidine synthase 2.5.1.16 0.652
2pv7 NADT-protein 1.3.1.12 0.652
1e1m FADNADPH:adrenodoxin oxidoreductase, mitochondrial 1.18.1.6 0.651
1k0j FADp-hydroxybenzoate hydroxylase / 0.651
2g82 NADGlyceraldehyde-3-phosphate dehydrogenase / 0.651
3tsc NADUncharacterized protein / 0.651
4xd2 NAIAlcohol dehydrogenase E chain 1.1.1.1 0.651
5kjc NAJAlcohol dehydrogenase E chain 1.1.1.1 0.651
4e5k NADPhosphonate dehydrogenase 1.20.1.1 0.650
4m55 NADUDP-glucuronic acid decarboxylase 1 4.1.1.35 0.650