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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
4id9 NAD Putative UDP-glucose 4-epimerase

Complex with similar interaction patterns:

PDB ID HET Uniprot Name EC Number Binding Mode
Similarity		 Align
4id9 NADPutative UDP-glucose 4-epimerase / 1.121
4idg NADPutative UDP-glucose 4-epimerase / 1.020
3icp NADNAD-dependent epimerase/dehydratase / 0.820
2c54 NADGDP-mannose 3,5-epimerase 5.1.3.18 0.814
2c59 NADGDP-mannose 3,5-epimerase 5.1.3.18 0.803
4gll NADUDP-glucuronic acid decarboxylase 1 4.1.1.35 0.797
4m55 NADUDP-glucuronic acid decarboxylase 1 4.1.1.35 0.789
4lk3 NADUDP-glucuronic acid decarboxylase 1 4.1.1.35 0.776
2b69 NADUDP-glucuronic acid decarboxylase 1 4.1.1.35 0.770
1rkx NADCDP-D-glucose-4,6-dehydratase / 0.763
2q1t NADPutative nucleotide sugar epimerase/ dehydratase / 0.754
3ko8 NADNAD-dependent epimerase/dehydratase / 0.753
1n7g NDPGDP-mannose 4,6 dehydratase 2 4.2.1.47 0.749
2z1m NDPGDP-mannose 4,6-dehydratase / 0.739
2z95 NDPGDP-mannose 4,6-dehydratase / 0.736
2q1w NADPutative nucleotide sugar epimerase/ dehydratase / 0.733
2q1s NAIPutative nucleotide sugar epimerase/ dehydratase / 0.732
1n7h NDPGDP-mannose 4,6 dehydratase 2 4.2.1.47 0.731
1rpn NDPGDP-mannose 4,6-dehydratase / 0.726
2ggs NDPdTDP-4-dehydrorhamnose reductase / 0.719
4fc7 NAPPeroxisomal 2,4-dienoyl-CoA reductase 1.3.1.34 0.717
1t2a NDPGDP-mannose 4,6 dehydratase 4.2.1.47 0.715
1w8d NAP2,4-dienoyl-CoA reductase, mitochondrial 1.3.1.34 0.714
2bfo NDPPteridine reductase 1 1.5.1.33 0.711
3rua NADUDP-N-acetylglucosamine 4-epimerase / 0.711
3sxp NADADP-L-glycero-D-mannoheptose-6-epimerase / 0.710
4clo NAPPteridine reductase / 0.710
2d1y NADOxidoreductase, short-chain dehydrogenase/reductase family / 0.709
3ndr NADPyridoxal 4-dehydrogenase 1.1.1.107 0.709
4ej0 NAPADP-L-glycero-D-manno-heptose-6-epimerase / 0.707
3rfx NADUronate dehydrogenase / 0.703
4lis NADUDP-glucose 4-epimerase (Eurofung) / 0.702
3h4v NAPPteridine reductase 1 1.5.1.33 0.701
3ehe NADUDP-glucose 4-epimerase (GalE-1) / 0.699
5jyd NADShort chain dehydrogenase / 0.699
4u7w NDPMxaA / 0.698
3lu1 NADUDP-N-acetylglucosamine 4-epimerase / 0.695
3ru7 NADUDP-N-acetylglucosamine 4-epimerase / 0.695
2p5y NADUDP-glucose 4-epimerase / 0.694
3rue NADUDP-N-acetylglucosamine 4-epimerase / 0.693
2gn8 NAPUDP-N-acetylglucosamine 4,6-dehydratase (inverting) 4.2.1.115 0.692
2x86 NAPADP-L-glycero-D-manno-heptose-6-epimerase / 0.692
3wmx NADNAD dependent epimerase/dehydratase / 0.692
2pzj NADPutative nucleotide sugar epimerase/ dehydratase / 0.691
4cr8 NADN-acylmannosamine 1-dehydrogenase 1.1.1.233 0.690
1zem NADXylitol dehydrogenase / 0.689
3ruf NADUDP-N-acetylglucosamine 4-epimerase / 0.689
2ewm NAD(S)-1-Phenylethanol dehydrogenase 1.1.1.311 0.688
2fkn NADUrocanate hydratase 4.2.1.49 0.688
4b8z NAPGDP-L-fucose synthase 1.1.1.271 0.687
1eq2 NAPADP-L-glycero-D-manno-heptose-6-epimerase / 0.686
1fk8 NAD3-alpha-hydroxysteroid dehydrogenase/carbonyl reductase 1.1.1.50 0.686
1i3l NADUDP-glucose 4-epimerase / 0.686
2x6t NAPADP-L-glycero-D-manno-heptose-6-epimerase / 0.685
2q1u NADPutative nucleotide sugar epimerase/ dehydratase / 0.684
4j7x NAPSepiapterin reductase 1.1.1.153 0.684
3nug NADPyridoxal 4-dehydrogenase 1.1.1.107 0.683
1g1a NADdTDP-glucose 4,6-dehydratase / 0.681
3a4v NADNDP-sugar epimerase / 0.680
2yy7 NADL-threonine dehydrogenase / 0.679
4nbw NADShort-chain dehydrogenase/reductase SDR / 0.679
5bt9 NAP3-oxoacyl-(Acyl-carrier-protein) reductase / 0.679
1w73 NAP2,4-dienoyl-CoA reductase, mitochondrial 1.3.1.34 0.678
3ru9 NADUDP-N-acetylglucosamine 4-epimerase / 0.678
2nyu SAMrRNA methyltransferase 2, mitochondrial / 0.677
5lc1 NADL-threonine 3-dehydrogenase / 0.676
3rud NADUDP-N-acetylglucosamine 4-epimerase / 0.674
1psd NADD-3-phosphoglycerate dehydrogenase 1.1.1.95 0.673
3pvz NADUDP-N-acetylglucosamine 4,6-dehydratase / 0.673
1dhr NADDihydropteridine reductase 1.5.1.34 0.672
3o03 NAPDehydrogenase with different specificities (Related to short-chain alcohol dehydrogenase) / 0.672
4e5y NDPGDP-L-fucose synthase 1.1.1.271 0.670
1ybm NAPUncharacterized protein At5g02240 / 0.669
3epp SFGmRNA cap guanine-N7 methyltransferase 2.1.1.56 0.668
4hwk NAPSepiapterin reductase 1.1.1.153 0.668
2v7g NADUrocanate hydratase 4.2.1.49 0.667
1orr NADCDP-paratose 2-epimerase / 0.666
2hun NAD336aa long hypothetical dTDP-glucose 4,6-dehydratase / 0.665
3qow SAMHistone-lysine N-methyltransferase, H3 lysine-79 specific 2.1.1.43 0.665
3sj7 NDP3-oxoacyl-(Acyl-carrier-protein) reductase, putative / 0.665
2p5u NADUDP-glucose 4-epimerase / 0.664
4c7k NAPCorticosteroid 11-beta-dehydrogenase isozyme 1 1.1.1.146 0.664
3ruc NADUDP-N-acetylglucosamine 4-epimerase / 0.663
1wvg APRCDP-glucose 4,6-dehydratase 4.2.1.45 0.662
3bmo NAPPteridine reductase / 0.662
2p35 SAHTrans-aconitate 2-methyltransferase / 0.661
4hxy NDPPlm1 / 0.661
4imp NDPPolyketide synthase extender modules 3-4 / 0.661
1wg8 SAMRibosomal RNA small subunit methyltransferase H / 0.660
3aw9 NADNAD-dependent epimerase/dehydratase / 0.660
3ec7 NADInositol 2-dehydrogenase / 0.660
4i1i NADMalate dehydrogenase / 0.660
4j49 NAIUncharacterized protein / 0.660
4nbu NAI3-oxoacyl-(Acyl-carrier-protein) reductase / 0.660
5jy1 NADPutative short-chain dehydrogenase/reductase / 0.660
1bws NDPGDP-L-fucose synthase / 0.659
3uce NDPDehydrogenase / 0.658
5e9w SAHmRNA cap guanine-N7 methyltransferase 2.1.1.56 0.658
1xq6 NAPUncharacterized protein At5g02240 / 0.657
3tox NAPPutative oxidoreductase / 0.657
4nbt NAD3-oxoacyl-[acyl-carrier-protein] reductase / 0.657
4twr NADNAD binding site:NAD-dependent epimerase/dehydratase:UDP-glucose 4-epimerase / 0.656
1geg NADDiacetyl reductase [(S)-acetoin forming] 1.1.1.304 0.655
1hdr NADDihydropteridine reductase 1.5.1.34 0.655
3ruh NADUDP-N-acetylglucosamine 4-epimerase / 0.655
2c29 NAPDihydroflavonol 4-reductase / 0.654
2np6 NEAModification methylase TaqI 2.1.1.72 0.654
3g49 NAPCorticosteroid 11-beta-dehydrogenase isozyme 1 1.1.1.146 0.654
1kvr NADUDP-glucose 4-epimerase 5.1.3.2 0.653
2vrb NAPTriphenylmethane reductase / 0.653
2yut NAPPutative short-chain oxidoreductase / 0.653
2x0i NAIMalate dehydrogenase / 0.652
3abi NADUncharacterized protein / 0.652
5d2e NAPMlnE / 0.652
1pjc NADAlanine dehydrogenase / 0.651
2pk3 A2RGDP-6-deoxy-D-mannose reductase / 0.651
3ijr NADOxidoreductase, short chain dehydrogenase/reductase family / 0.651
4l4x NDPAmphI / 0.651
1b14 NADAlcohol dehydrogenase 1.1.1.1 0.650
1n5d NDPCarbonyl reductase [NADPH] 1 / 0.650
3sr4 TT8Histone-lysine N-methyltransferase, H3 lysine-79 specific 2.1.1.43 0.650
4ros APRMalate dehydrogenase / 0.650