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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
1u7h NAD Putative ornithine cyclodeaminase

Complex with similar interaction patterns:

PDB ID HET Uniprot Name EC Number Binding Mode
Similarity		 Align
1u7h NADPutative ornithine cyclodeaminase / 1.292
1x7d NADPutative ornithine cyclodeaminase / 1.263
5kjc NAJAlcohol dehydrogenase E chain 1.1.1.1 0.838
2ohx NADAlcohol dehydrogenase E chain 1.1.1.1 0.832
1sow NADL-lactate dehydrogenase 1.1.1.27 0.830
1mgo NADAlcohol dehydrogenase E chain 1.1.1.1 0.825
1lde NADAlcohol dehydrogenase E chain 1.1.1.1 0.820
5kjf NAJAlcohol dehydrogenase E chain 1.1.1.1 0.819
5kj6 NAJAlcohol dehydrogenase E chain 1.1.1.1 0.818
5kje NAJAlcohol dehydrogenase E chain 1.1.1.1 0.818
4dxh NAJAlcohol dehydrogenase E chain 1.1.1.1 0.814
4nfh NAJAlcohol dehydrogenase E chain 1.1.1.1 0.814
4oaq NDPR-specific carbonyl reductase / 0.813
5cdg NAJAlcohol dehydrogenase E chain 1.1.1.1 0.813
5cds NAJAlcohol dehydrogenase E chain 1.1.1.1 0.813
5cdt NAJAlcohol dehydrogenase E chain 1.1.1.1 0.813
3oq6 NAJAlcohol dehydrogenase E chain 1.1.1.1 0.812
4gkv NADAlcohol dehydrogenase, propanol-preferring 1.1.1.1 0.812
4nfs NAJAlcohol dehydrogenase E chain 1.1.1.1 0.812
4xd2 NAIAlcohol dehydrogenase E chain 1.1.1.1 0.808
1het NADAlcohol dehydrogenase E chain 1.1.1.1 0.807
5kcz NAJAlcohol dehydrogenase E chain 1.1.1.1 0.806
3cos NADAlcohol dehydrogenase 4 1.1.1.1 0.805
4dwv NAJAlcohol dehydrogenase E chain 1.1.1.1 0.805
5kcp NAJAlcohol dehydrogenase E chain 1.1.1.1 0.805
5kj1 NAJAlcohol dehydrogenase E chain 1.1.1.1 0.805
1pzh NADLactate dehydrogenase / 0.802
1t2d NADL-lactate dehydrogenase 1.1.1.27 0.801
1axe NADAlcohol dehydrogenase E chain 1.1.1.1 0.800
1u3v NADAlcohol dehydrogenase 1B 1.1.1.1 0.795
1hyh NADL-2-hydroxyisocaproate dehydrogenase / 0.793
4ng5 NAJAlcohol dehydrogenase E chain 1.1.1.1 0.788
3qvs NADMyo-inositol-1-phosphate synthase (Ino1) / 0.787
4jk3 NADUncharacterized protein / 0.786
1hld NADAlcohol dehydrogenase E chain 1.1.1.1 0.783
1r37 NADNAD-dependent alcohol dehydrogenase 1.1.1.1 0.783
4j49 NADUncharacterized protein / 0.782
1hf3 NADAlcohol dehydrogenase E chain 1.1.1.1 0.780
1f8f NADBenzyl alcohol dehydrogenase / 0.776
1hsz NADAlcohol dehydrogenase 1B 1.1.1.1 0.775
4j4b NAIUncharacterized protein / 0.775
1gv0 NADMalate dehydrogenase / 0.774
1heu NADAlcohol dehydrogenase E chain 1.1.1.1 0.774
1ht0 NADAlcohol dehydrogenase 1C 1.1.1.1 0.774
3two NDPMannitol dehydrogenase / 0.772
4plp NADHomospermidine synthase 2.5.1.44 0.770
2jhf NADAlcohol dehydrogenase E chain 1.1.1.1 0.769
3h3j NADL-lactate dehydrogenase 1 1.1.1.27 0.768
1a71 NADAlcohol dehydrogenase E chain 1.1.1.1 0.766
2oxi NADAlcohol dehydrogenase E chain 1.1.1.1 0.766
1adc PADAlcohol dehydrogenase E chain 1.1.1.1 0.761
1axg NADAlcohol dehydrogenase E chain 1.1.1.1 0.758
5a1t NAIL-lactate dehydrogenase / 0.758
1b8v NADMalate dehydrogenase / 0.757
1yqd NAPSinapyl alcohol dehydrogenase / 0.757
4wlv NADMalate dehydrogenase, mitochondrial 1.1.1.37 0.757
1hdz NADAlcohol dehydrogenase 1B 1.1.1.1 0.754
4c4o NADSADH / 0.753
4xqc NADHomospermidine synthase 2.5.1.44 0.753
4j49 NAIUncharacterized protein / 0.751
1h2b NAJNAD-dependent alcohol dehydrogenase / 0.750
4wlu NADMalate dehydrogenase, mitochondrial 1.1.1.37 0.749
3qvx NADMyo-inositol-1-phosphate synthase (Ino1) / 0.748
4tvb NADHomospermidine synthase 2.5.1.44 0.748
3qvt NAIMyo-inositol-1-phosphate synthase (Ino1) / 0.745
1ie3 NADMalate dehydrogenase / 0.744
2dph NADFormaldehyde dismutase / 0.743
2vhv NAIAlanine dehydrogenase 1.4.1.1 0.740
3jv7 NADSecondary alcohol dehydrogenase / 0.739
4i1i NADMalate dehydrogenase / 0.738
1pjc NADAlanine dehydrogenase / 0.737
1yqx NAPSinapyl alcohol dehydrogenase / 0.737
2voj NADAlanine dehydrogenase 1.4.1.1 0.737
1pzg A3DLactate dehydrogenase / 0.734
2o4c NADErythronate-4-phosphate dehydrogenase / 0.734
4j43 NADUncharacterized protein / 0.734
3pdu NAPGlyoxalate/3-oxopropanoate/4-oxobutanoate reductase / 0.733
4okn NAIL-lactate dehydrogenase A chain 1.1.1.27 0.732
4l4s NAIL-lactate dehydrogenase A chain 1.1.1.27 0.731
4jnk NAIL-lactate dehydrogenase A chain 1.1.1.27 0.730
1b8u NADMalate dehydrogenase / 0.729
1uxk NADMalate dehydrogenase / 0.728
3tqh NDPQuinone oxidoreductase / 0.728
1kol NADGlutathione-independent formaldehyde dehydrogenase / 0.727
1yb5 NAPQuinone oxidoreductase 1.6.5.5 0.727
3m6i NADL-arabinitol 4-dehydrogenase 1.1.1.12 0.724
4nd3 NADLactate dehydrogenase, adjacent gene encodes predicted malate dehydrogenase / 0.724
4w6z 8IDAlcohol dehydrogenase 1 1.1.1.1 0.723
1uxj NADMalate dehydrogenase / 0.721
3pef NAPGlyoxalate/3-oxopropanoate/4-oxobutanoate reductase / 0.720
4cpd NADAlcohol dehydrogenase / 0.719
2x0i NAIMalate dehydrogenase / 0.716
2dfd NADMalate dehydrogenase, mitochondrial 1.1.1.37 0.714
1ib6 NADMalate dehydrogenase / 0.713
4xrg NADHomospermidine synthase 2.5.1.44 0.713
6adh NADAlcohol dehydrogenase E chain 1.1.1.1 0.712
4hfm NAP2-alkenal reductase (NADP(+)-dependent) / 0.711
2eer NADNAD-dependent alcohol dehydrogenase 1.1.1.1 0.709
4wlo NAIMalate dehydrogenase, mitochondrial 1.1.1.37 0.709
1vjt NADAlpha-glucosidase, putative / 0.708
2fn7 NADLactate dehydrogenase, adjacent gene encodes predicted malate dehydrogenase / 0.708
3d4p NADL-lactate dehydrogenase 1 1.1.1.27 0.708
1llu NADAlcohol dehydrogenase / 0.707
1p1h NADInositol-3-phosphate synthase 5.5.1.4 0.706
3d64 NADAdenosylhomocysteinase / 0.705
3pvz NADUDP-N-acetylglucosamine 4,6-dehydratase / 0.705
1mp0 NADAlcohol dehydrogenase class-3 1.1.1.1 0.703
2vhx NADAlanine dehydrogenase 1.4.1.1 0.703
1wze NADMalate dehydrogenase / 0.702
2ekl NADD-3-phosphoglycerate dehydrogenase / 0.700
2x0r NADMalate dehydrogenase / 0.700
2xaa NADSecondary alcohol dehydrogenase / 0.699
3h3f NAIL-lactate dehydrogenase A chain 1.1.1.27 0.699
4xq9 NADHomospermidine synthase 2.5.1.44 0.699
1il0 NADHydroxyacyl-coenzyme A dehydrogenase, mitochondrial 1.1.1.35 0.696
4nd2 A3DLactate dehydrogenase, adjacent gene encodes predicted malate dehydrogenase / 0.696
5env NADAlcohol dehydrogenase 1 1.1.1.1 0.695
1pl8 NADSorbitol dehydrogenase 1.1.1.14 0.694
2vhz NAIAlanine dehydrogenase 1.4.1.1 0.694
2pa3 NAID-3-phosphoglycerate dehydrogenase 1.1.1.95 0.693
4nu6 NADPhosphonate dehydrogenase 1.20.1.1 0.691
1i36 NAPConserved protein / 0.688
1o6z NADMalate dehydrogenase / 0.688
2dt5 NADRedox-sensing transcriptional repressor Rex / 0.688
3cin NADMyo-inositol-1-phosphate synthase-related protein / 0.688
4rls NAIL-lactate dehydrogenase A chain 1.1.1.27 0.688
2vwq NAPGlucose 1-dehydrogenase / 0.687
2gsd NADFormate dehydrogenase / 0.686
2a94 AP0L-lactate dehydrogenase 1.1.1.27 0.685
4nd4 NADLactate dehydrogenase, adjacent gene encodes predicted malate dehydrogenase / 0.684
4bv9 NDPKetimine reductase mu-crystallin 1.5.1.25 0.683
4rqu NADAlcohol dehydrogenase class-P / 0.683
1agn NADAlcohol dehydrogenase class 4 mu/sigma chain 1.1.1.1 0.682
1c1d NAIPhenylalanine dehydrogenase / 0.682
1wwk NAD307aa long hypothetical phosphoglycerate dehydrogenase / 0.682
1y7t NDPMalate dehydrogenase / 0.682
2a92 NAIL-lactate dehydrogenase / 0.680
2i9p NAD3-hydroxyisobutyrate dehydrogenase, mitochondrial 1.1.1.31 0.680
2nad NADFormate dehydrogenase / 0.680
2wsb NADGalactitol dehydrogenase / 0.680
3nx4 NAPPutative oxidoreductase / 0.680
1xq6 NAPUncharacterized protein At5g02240 / 0.679
3wv8 ATPHmd co-occurring protein HcgE / 0.679
3n7u NADFormate dehydrogenase, chloroplastic/mitochondrial / 0.675
1omo NADAlanine dehydrogenase / 0.674
1t2c NAIL-lactate dehydrogenase 1.1.1.27 0.673
2aa3 AP0L-lactate dehydrogenase / 0.673
2g76 NADD-3-phosphoglycerate dehydrogenase 1.1.1.95 0.673
2vhw NAIAlanine dehydrogenase 1.4.1.1 0.673
2yvg NADFerredoxin reductase / 0.671
1b3r NADAdenosylhomocysteinase 3.3.1.1 0.670
1yba NADD-3-phosphoglycerate dehydrogenase 1.1.1.95 0.670
2fkn NADUrocanate hydratase 4.2.1.49 0.670
1bdm NAXMalate dehydrogenase / 0.666
4gi2 NAPCrotonyl-CoA carboxylase/reductase / 0.666
1la2 NADInositol-3-phosphate synthase 5.5.1.4 0.665
1yl7 NAI4-hydroxy-tetrahydrodipicolinate reductase / 0.664
4ej0 NAPADP-L-glycero-D-manno-heptose-6-epimerase / 0.663
1e3l NADAlcohol dehydrogenase 4 1.1.1.1 0.662
1m76 NADHydroxyacyl-coenzyme A dehydrogenase, mitochondrial 1.1.1.35 0.661
3ggp NADPrephenate dehydrogenase / 0.660
3orf NADDihydropteridine reductase 1.5.1.34 0.660
1f0y NADHydroxyacyl-coenzyme A dehydrogenase, mitochondrial 1.1.1.35 0.659
1adb CNDAlcohol dehydrogenase E chain 1.1.1.1 0.658
1ez4 NADL-lactate dehydrogenase 1.1.1.27 0.658
4mdh NADMalate dehydrogenase, cytoplasmic 1.1.1.37 0.658
4e5m NAPPhosphonate dehydrogenase 1.20.1.1 0.657
4y0k NAPAntE / 0.657
5dt9 NADErythronate-4-phosphate dehydrogenase / 0.657
2p5y NADUDP-glucose 4-epimerase / 0.656
4e5k NADPhosphonate dehydrogenase 1.20.1.1 0.656
4e5n NADPhosphonate dehydrogenase 1.20.1.1 0.655
4nbu NAI3-oxoacyl-(Acyl-carrier-protein) reductase / 0.655
1pl6 NADSorbitol dehydrogenase 1.1.1.14 0.654
2d0o ADPDiol dehydratase-reactivating factor alpha subunit / 0.653
4cr8 NADN-acylmannosamine 1-dehydrogenase 1.1.1.233 0.653
1sby NADAlcohol dehydrogenase 1.1.1.1 0.652
3gvi ADPMalate dehydrogenase / 0.652
3q2k NAIProbable oxidoreductase / 0.652
4dlb NADS-(hydroxymethyl)glutathione dehydrogenase / 0.652
1nfr NAD3-alpha-(or 20-beta)-hydroxysteroid dehydrogenase 1.1.1.53 0.651
3t4e NADQuinate/shikimate dehydrogenase / 0.651
4y1b NAPAntE / 0.651
2ph5 NADHomospermidine synthase / 0.650