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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
1i2b NAD UDP-sulfoquinovose synthase, chloroplastic 3.13.1.1

Complex with similar interaction patterns:

PDB ID HET Uniprot Name EC Number Binding Mode
Similarity
Align
1i2b NADUDP-sulfoquinovose synthase, chloroplastic 3.13.1.1 1.449
1nah NADUDP-glucose 4-epimerase 5.1.3.2 0.899
1kvr NADUDP-glucose 4-epimerase 5.1.3.2 0.855
3icp NADNAD-dependent epimerase/dehydratase / 0.853
3ko8 NADNAD-dependent epimerase/dehydratase / 0.851
3ehe NADUDP-glucose 4-epimerase (GalE-1) / 0.832
3aw9 NADNAD-dependent epimerase/dehydratase / 0.822
1bdb NADCis-2,3-dihydrobiphenyl-2,3-diol dehydrogenase / 0.821
4twr NADNAD binding site:NAD-dependent epimerase/dehydratase:UDP-glucose 4-epimerase / 0.821
2wsb NADGalactitol dehydrogenase / 0.817
3nug NADPyridoxal 4-dehydrogenase 1.1.1.107 0.815
3pvz NADUDP-N-acetylglucosamine 4,6-dehydratase / 0.805
3ru9 NADUDP-N-acetylglucosamine 4-epimerase / 0.804
5js6 NAD17-beta-hydroxysteroid dehydrogenase 14 1.1.1 0.793
4m55 NADUDP-glucuronic acid decarboxylase 1 4.1.1.35 0.790
5jsf NAD17-beta-hydroxysteroid dehydrogenase 14 1.1.1 0.788
3rua NADUDP-N-acetylglucosamine 4-epimerase / 0.782
4b79 NADProbable short-chain dehydrogenase / 0.781
3ruf NADUDP-N-acetylglucosamine 4-epimerase / 0.778
2c20 NADUDP-glucose 4-epimerase / 0.776
2yy7 NADL-threonine dehydrogenase / 0.776
3lu1 NADUDP-N-acetylglucosamine 4-epimerase / 0.776
2pzj NADPutative nucleotide sugar epimerase/ dehydratase / 0.775
1g1a NADdTDP-glucose 4,6-dehydratase / 0.770
2ztl NADD(-)-3-hydroxybutyrate dehydrogenase / 0.769
2gdz NAD15-hydroxyprostaglandin dehydrogenase [NAD(+)] 1.1.1.141 0.768
3w8e NAD3-hydroxybutyrate dehydrogenase / 0.767
1ek5 NADUDP-glucose 4-epimerase / 0.760
5lc1 NADL-threonine 3-dehydrogenase / 0.757
4yag NAIC alpha-dehydrogenase / 0.756
4yai NAIC alpha-dehydrogenase / 0.755
3sxp NADADP-L-glycero-D-mannoheptose-6-epimerase / 0.754
1geg NADDiacetyl reductase [(S)-acetoin forming] 1.1.1.304 0.752
2c29 NAPDihydroflavonol 4-reductase / 0.751
2q2v NADBeta-D-hydroxybutyrate dehydrogenase / 0.751
3a4v NADNDP-sugar epimerase / 0.751
2ztm NADD(-)-3-hydroxybutyrate dehydrogenase / 0.750
3rfx NADUronate dehydrogenase / 0.747
3ru7 NADUDP-N-acetylglucosamine 4-epimerase / 0.747
4lis NADUDP-glucose 4-epimerase (Eurofung) / 0.747
3wds NADNADH-dependent quinuclidinone reductase / 0.746
1rkx NADCDP-D-glucose-4,6-dehydratase / 0.745
3ak4 NADNADH-dependent quinuclidinone reductase / 0.745
2p5u NADUDP-glucose 4-epimerase / 0.744
2b69 NADUDP-glucuronic acid decarboxylase 1 4.1.1.35 0.743
2ztv NADD(-)-3-hydroxybutyrate dehydrogenase / 0.743
3rj5 NADAlcohol dehydrogenase 1.1.1.1 0.743
2q1t NADPutative nucleotide sugar epimerase/ dehydratase / 0.741
4gll NADUDP-glucuronic acid decarboxylase 1 4.1.1.35 0.741
2d1y NADOxidoreductase, short-chain dehydrogenase/reductase family / 0.738
3rud NADUDP-N-acetylglucosamine 4-epimerase / 0.738
3p19 NDPPutative blue fluorescent protein / 0.737
2c59 NADGDP-mannose 3,5-epimerase 5.1.3.18 0.735
3ajr NADNDP-sugar epimerase / 0.735
1xse NDPCorticosteroid 11-beta-dehydrogenase isozyme 1 1.1.1.146 0.734
4dc0 NDPPutative ketoacyl reductase 1.3.1 0.734
2p5y NADUDP-glucose 4-epimerase / 0.732
2q1s NAIPutative nucleotide sugar epimerase/ dehydratase / 0.731
3mje NDPAmphB / 0.727
3w8d NAD3-hydroxybutyrate dehydrogenase / 0.727
4kwh NAPReductase homolog / 0.727
4lk3 NADUDP-glucuronic acid decarboxylase 1 4.1.1.35 0.726
1eq2 NAPADP-L-glycero-D-manno-heptose-6-epimerase / 0.725
4fn4 NADShort chain dehydrogenase / 0.725
1x7g NAPPutative ketoacyl reductase 1.3.1 0.724
4dbz NDPPutative ketoacyl reductase 1.3.1 0.724
4k6f NAPPutative Acetoacetyl-CoA reductase / 0.723
3ruc NADUDP-N-acetylglucosamine 4-epimerase / 0.722
3pdu NAPGlyoxalate/3-oxopropanoate/4-oxobutanoate reductase / 0.721
3vdq NAD3-hydroxybutyrate dehydrogenase / 0.721
4xqc NADHomospermidine synthase 2.5.1.44 0.721
4xrg NADHomospermidine synthase 2.5.1.44 0.721
1nai NADUDP-glucose 4-epimerase 5.1.3.2 0.720
1jki NAIInositol-3-phosphate synthase 5.5.1.4 0.719
3w8f NAD3-hydroxybutyrate dehydrogenase / 0.719
1ipe NDPTropinone reductase 2 1.1.1.236 0.718
2nnl NAPDihydroflavonol 4-reductase 1.1.1.219 0.718
5ig2 NADShort-chain dehydrogenase/reductase SDR / 0.716
3rj9 NADAlcohol dehydrogenase 1.1.1.1 0.715
3a9w NADNDP-sugar epimerase / 0.714
1lld NADL-lactate dehydrogenase 2 1.1.1.27 0.713
2wyv NADEnoyl-[acyl-carrier-protein] reductase [NADH] / 0.713
3pef NAPGlyoxalate/3-oxopropanoate/4-oxobutanoate reductase / 0.713
4hp8 NAP2-deoxy-D-gluconate 3-dehydrogenase / 0.712
4tvb NADHomospermidine synthase 2.5.1.44 0.711
4j7u NAPSepiapterin reductase 1.1.1.153 0.710
3ai3 NDPNADPH-sorbose reductase / 0.708
5cpb NADEnoyl-[acyl-carrier-protein] reductase [NADH] 1.3.1.9 0.708
4nbt NAD3-oxoacyl-[acyl-carrier-protein] reductase / 0.707
4fj2 NAP17beta-hydroxysteroid dehydrogenase / 0.706
2x0r NADMalate dehydrogenase / 0.705
2bgm NAJSecoisolariciresinol dehydrogenase 1.1.1.331 0.704
1ae1 NAPTropinone reductase 1 / 0.703
3ec7 NADInositol 2-dehydrogenase / 0.702
3oa2 NADUDP-N-acetyl-2-amino-2-deoxy-D-glucuronate oxidase / 0.702
3wmx NADNAD dependent epimerase/dehydratase / 0.702
4is3 NAD3alpha-hydroxy bile acid-CoA-ester 3-dehydrogenase 2 1.17.98.1 0.702
1x7h NDPPutative ketoacyl reductase 1.3.1 0.701
1g0n NDPTetrahydroxynaphthalene reductase 1.1.1.252 0.700
1zem NADXylitol dehydrogenase / 0.698
3of2 NADEnoyl-[acyl-carrier-protein] reductase [NADH] 1.3.1.9 0.698
3w6u NAP6-phosphogluconate dehydrogenase, NAD-binding protein / 0.698
4gqb 0XUProtein arginine N-methyltransferase 5 / 0.698
4b8z NAPGDP-L-fucose synthase 1.1.1.271 0.696
3ulk NDPKetol-acid reductoisomerase (NADP(+)) / 0.695
4plp NADHomospermidine synthase 2.5.1.44 0.694
2ztu NADD(-)-3-hydroxybutyrate dehydrogenase / 0.693
5kje NAJAlcohol dehydrogenase E chain 1.1.1.1 0.693
2yut NAPPutative short-chain oxidoreductase / 0.692
1m76 NADHydroxyacyl-coenzyme A dehydrogenase, mitochondrial 1.1.1.35 0.691
3sx2 NADUncharacterized protein / 0.691
3o26 NDPSalutaridine reductase / 0.690
4bqp NADEnoyl-[acyl-carrier-protein] reductase [NADH] 1.3.1.9 0.690
4m87 NADEnoyl-[acyl-carrier-protein] reductase [NADH] / 0.690
4nfh NAJAlcohol dehydrogenase E chain 1.1.1.1 0.690
1nff NAD3-alpha-(or 20-beta)-hydroxysteroid dehydrogenase 1.1.1.53 0.689
2x86 NAPADP-L-glycero-D-manno-heptose-6-epimerase / 0.689
1ur5 NADMalate dehydrogenase / 0.688
2idz ZIDEnoyl-[acyl-carrier-protein] reductase [NADH] 1.3.1.9 0.687
1vl8 NAPOxidoreductase, short chain dehydrogenase/reductase family / 0.686
1xg5 NAPDehydrogenase/reductase SDR family member 11 / 0.686
3iah NAPPutative oxoacyl-(Acyl carrier protein) reductase / 0.686
4u7w NDPMxaA / 0.686
1c1d NAIPhenylalanine dehydrogenase / 0.685
1hld NADAlcohol dehydrogenase E chain 1.1.1.1 0.685
1i3l NADUDP-glucose 4-epimerase / 0.685
2y99 NADCis-2,3-dihydrobiphenyl-2,3-diol dehydrogenase 1.3.1.56 0.685
3oey NADEnoyl-[acyl-carrier-protein] reductase [NADH] 1.3.1.9 0.685
1gv0 NADMalate dehydrogenase / 0.684
1o6z NADMalate dehydrogenase / 0.684
1zh8 NAPUncharacterized protein / 0.684
2q1u NADPutative nucleotide sugar epimerase/ dehydratase / 0.684
2voj NADAlanine dehydrogenase 1.4.1.1 0.684
3f3s NADLambda-crystallin homolog / 0.684
4gh5 NADShort-chain dehydrogenase/reductase SDR / 0.684
5kcp NAJAlcohol dehydrogenase E chain 1.1.1.1 0.684
1cyd NDPCarbonyl reductase [NADPH] 2 1.1.1.184 0.683
3geg NADShort-chain dehydrogenase/reductase SDR / 0.683
3mht SAHModification methylase HhaI 2.1.1.37 0.683
4j4b NAIUncharacterized protein / 0.683
4kwc SAHMethyltransferase domain family / 0.683
4wec NADShort chain dehydrogenase / 0.683
5d2e NAPMlnE / 0.683
1emd NADMalate dehydrogenase / 0.682
3dmt NADGlyceraldehyde-3-phosphate dehydrogenase, glycosomal 1.2.1.12 0.682
3ggo NAIPrephenate dehydrogenase / 0.682
4b4o NDPEpimerase family protein SDR39U1 / 0.682
1rp0 AHZThiamine thiazole synthase, chloroplastic / 0.680
2rbe NDPCorticosteroid 11-beta-dehydrogenase isozyme 1 1.1.1.146 0.680
3ndr NADPyridoxal 4-dehydrogenase 1.1.1.107 0.680
4imp NDPPolyketide synthase extender modules 3-4 / 0.680
4nec SAHPutative SAM-dependent methyltransferase / 0.680
2ieb ZIDEnoyl-[acyl-carrier-protein] reductase [NADH] 1.3.1.9 0.679
3qrw NDPPutative ketoacyl reductase 1.3.1 0.679
4bii NADEnoyl-[acyl-carrier-protein] reductase [NADH] 1.3.1.9 0.679
4cr8 NADN-acylmannosamine 1-dehydrogenase 1.1.1.233 0.679
4yac NAIC alpha-dehydrogenase / 0.679
4fp9 SAM5-methylcytosine rRNA methyltransferase NSUN4 2.1.1 0.678
1w73 NAP2,4-dienoyl-CoA reductase, mitochondrial 1.3.1.34 0.677
2fkn NADUrocanate hydratase 4.2.1.49 0.677
4j7x NAPSepiapterin reductase 1.1.1.153 0.677
4eue NAITrans-2-enoyl-CoA reductase [NADH] / 0.676
1f17 NAIHydroxyacyl-coenzyme A dehydrogenase, mitochondrial 1.1.1.35 0.675
2ag5 NAD3-hydroxybutyrate dehydrogenase type 2 / 0.674
2hmv ADPKtr system potassium uptake protein A / 0.674
3qvs NADMyo-inositol-1-phosphate synthase (Ino1) / 0.674
1u7t TDT3-hydroxyacyl-CoA dehydrogenase type-2 1.1.1.35 0.673
2hun NAD336aa long hypothetical dTDP-glucose 4,6-dehydratase / 0.673
3pgx NADUncharacterized NAD-dependent oxidoreductase MAP_4146 / 0.673
3rku NAPNADP-dependent 3-hydroxy acid dehydrogenase / 0.673
3we0 FADLysine 2-monooxygenase / 0.673
4ej0 NAPADP-L-glycero-D-manno-heptose-6-epimerase / 0.673
4z3d NDPCarbonyl reductase [NADPH] 1 1.1.1.184 0.673
2o06 MTASpermidine synthase 2.5.1.16 0.672
1dir NADDihydropteridine reductase 1.5.1.34 0.671
1gco NADGlucose 1-dehydrogenase 1.1.1.47 0.671
2okc SAMProbable type I restriction enzyme BthVORF4518P M protein 2.1.1.72 0.671
1guy NADMalate dehydrogenase / 0.670
2dkn NAI3-alpha-hydroxysteroid dehydrogenase / 0.670
2q1w NADPutative nucleotide sugar epimerase/ dehydratase / 0.670
4c7k NAPCorticosteroid 11-beta-dehydrogenase isozyme 1 1.1.1.146 0.670
4o0l NDPNADPH-dependent 3-quinuclidinone reductase / 0.670
3c3y SAHO-methyltransferase / 0.669
3o9z NADLipopolysaccaride biosynthesis protein wbpB / 0.669
3qvx NADMyo-inositol-1-phosphate synthase (Ino1) / 0.669
1e3s NAD3-hydroxyacyl-CoA dehydrogenase type-2 1.1.1.35 0.668
2g76 NADD-3-phosphoglycerate dehydrogenase 1.1.1.95 0.668
3q2k NAIProbable oxidoreductase / 0.668
3rue NADUDP-N-acetylglucosamine 4-epimerase / 0.668
3u4c NDPNADPH-dependent reductase BacG / 0.668
4lcj NADC-terminal-binding protein 2 / 0.668
1g6k NADGlucose 1-dehydrogenase 1.1.1.47 0.667
2ggs NDPdTDP-4-dehydrorhamnose reductase / 0.667
2q2q NADBeta-D-hydroxybutyrate dehydrogenase / 0.667
3aut NAIGlucose 1-dehydrogenase 4 1.1.1.47 0.667
3gvi ADPMalate dehydrogenase / 0.667
3lvf NADGlyceraldehyde-3-phosphate dehydrogenase 1 / 0.667
4hxy NDPPlm1 / 0.667
4yr9 NADL-threonine 3-dehydrogenase, mitochondrial 1.1.1.103 0.667
2ome NADC-terminal-binding protein 2 / 0.666
1lua NAPBifunctional protein MdtA 1.5.1.5 0.665
2gn8 NAPUDP-N-acetylglucosamine 4,6-dehydratase (inverting) 4.2.1.115 0.665
4bmv NAPShort-chain dehydrogenase / 0.665
5jla NADPutative short-chain dehydrogenase/reductase / 0.665
1orr NADCDP-paratose 2-epimerase / 0.664
1qaq SFGrRNA adenine N-6-methyltransferase 2.1.1.184 0.664
4y1b NAPAntE / 0.664
5kjf NAJAlcohol dehydrogenase E chain 1.1.1.1 0.664
1b2l NDCAlcohol dehydrogenase 1.1.1.1 0.663
1w8d NAP2,4-dienoyl-CoA reductase, mitochondrial 1.3.1.34 0.663
2dvm NAD439aa long hypothetical malate oxidoreductase (NAD) [malic enzyme] / 0.663
4dpl NAPMalonyl-CoA reductase 1.2.1.75 0.663
4nfs NAJAlcohol dehydrogenase E chain 1.1.1.1 0.663
1cer NADGlyceraldehyde-3-phosphate dehydrogenase / 0.662
1ht0 NADAlcohol dehydrogenase 1C 1.1.1.1 0.662
2nv6 ZIDEnoyl-[acyl-carrier-protein] reductase [NADH] 1.3.1.9 0.662
3cmc NADGlyceraldehyde-3-phosphate dehydrogenase / 0.662
3ggp NADPrephenate dehydrogenase / 0.662
3nt2 NADInositol 2-dehydrogenase/D-chiro-inositol 3-dehydrogenase 1.1.1.18 0.662
4y0k NAPAntE / 0.662
2ntv P1HEnoyl-[acyl-carrier-protein] reductase [NADH] / 0.661
3tsc NADUncharacterized protein / 0.661
3wfj NAD2-dehydropantoate 2-reductase / 0.661
1gd1 NADGlyceraldehyde-3-phosphate dehydrogenase / 0.660
1lso NADHydroxyacyl-coenzyme A dehydrogenase, mitochondrial 1.1.1.35 0.660
1u8f NADGlyceraldehyde-3-phosphate dehydrogenase 1.2.1.12 0.660
3iup NDPPossible NADH oxidoreductase / 0.660
3tri NAPPyrroline-5-carboxylate reductase / 0.660
4zju NADEnoyl-[acyl-carrier-protein] reductase [NADH] / 0.660
1o94 ADPTrimethylamine dehydrogenase 1.5.8.2 0.659
1sqf SAMRibosomal RNA small subunit methyltransferase B 2.1.1.176 0.659
1e6w NAD3-hydroxyacyl-CoA dehydrogenase type-2 1.1.1.35 0.658
1wwk NAD307aa long hypothetical phosphoglycerate dehydrogenase / 0.658
2nyu SAMrRNA methyltransferase 2, mitochondrial / 0.658
3bgi SAHThiopurine S-methyltransferase 2.1.1.67 0.658
4oxy NADEnoyl-[acyl-carrier-protein] reductase [NADH] 1.3.1.9 0.658
1dxy NADD-2-hydroxyisocaproate dehydrogenase 1.1.1 0.657
2bd0 NAPSepiapterin reductase / 0.657
2dte NAIGlucose 1-dehydrogenase related protein / 0.657
1uxk NADMalate dehydrogenase / 0.656
1w4z NAPPutative ketoacyl reductase 1.3.1 0.656
2o4c NADErythronate-4-phosphate dehydrogenase / 0.656
4b7x NAPProbable oxidoreductase / 0.656
5icf SAH(S)-norcoclaurine 6-O-methyltransferase / 0.656
1u7t NAD3-hydroxyacyl-CoA dehydrogenase type-2 1.1.1.35 0.655
3bgv SAHmRNA cap guanine-N7 methyltransferase 2.1.1.56 0.655
3uko NADAlcohol dehydrogenase class-3 / 0.655
1gee NADGlucose 1-dehydrogenase 1.1.1.47 0.654
1ma0 NADAlcohol dehydrogenase class-3 1.1.1.1 0.654
1n5d NDPCarbonyl reductase [NADPH] 1 / 0.654
2z6u SAHModification methylase HhaI 2.1.1.37 0.654
3a28 NADL-2,3-butanediol dehydrogenase 1.1.1.76 0.654
3nt4 NAIInositol 2-dehydrogenase/D-chiro-inositol 3-dehydrogenase 1.1.1.18 0.654
5f8f SFGPossible transcriptional regulatory protein / 0.654
1n2s NAIdTDP-4-dehydrorhamnose reductase 1.1.1.133 0.653
1pjc NADAlanine dehydrogenase / 0.653
2vna NAPProstaglandin reductase 2 1.3.1.48 0.653
3g49 NAPCorticosteroid 11-beta-dehydrogenase isozyme 1 1.1.1.146 0.653
4nd4 NADLactate dehydrogenase, adjacent gene encodes predicted malate dehydrogenase / 0.653
4xgi NADGlutamate dehydrogenase / 0.653
1b14 NADAlcohol dehydrogenase 1.1.1.1 0.652
2ydx NAPMethionine adenosyltransferase 2 subunit beta / 0.652
3ruh NADUDP-N-acetylglucosamine 4-epimerase / 0.652
3sgl SAMtRNA 5-methylaminomethyl-2-thiouridine biosynthesis bifunctional protein MnmC / 0.652
4ros APRMalate dehydrogenase / 0.652
2wdz NADGalactitol dehydrogenase / 0.651
3jyo NADQuinate/shikimate dehydrogenase (NAD(+)) / 0.651
3nx4 NAPPutative oxidoreductase / 0.651
3pym NADGlyceraldehyde-3-phosphate dehydrogenase 3 1.2.1.12 0.651
5cdg NAJAlcohol dehydrogenase E chain 1.1.1.1 0.651
1fxs NAPGDP-L-fucose synthase / 0.650
1zmc NADDihydrolipoyl dehydrogenase, mitochondrial 1.8.1.4 0.650