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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
2x0r NAD Malate dehydrogenase

Complex with similar interaction patterns:

PDB ID HET Uniprot Name EC Number Binding Mode
Similarity		 Align
2x0r NADMalate dehydrogenase / 1.098
1o6z NADMalate dehydrogenase / 0.829
2ohx NADAlcohol dehydrogenase E chain 1.1.1.1 0.742
2o4c NADErythronate-4-phosphate dehydrogenase / 0.740
4jk3 NADUncharacterized protein / 0.737
4wlv NADMalate dehydrogenase, mitochondrial 1.1.1.37 0.733
2dfd NADMalate dehydrogenase, mitochondrial 1.1.1.37 0.724
4mdh NADMalate dehydrogenase, cytoplasmic 1.1.1.37 0.720
3d4p NADL-lactate dehydrogenase 1 1.1.1.27 0.719
4nd4 NADLactate dehydrogenase, adjacent gene encodes predicted malate dehydrogenase / 0.718
1ib6 NADMalate dehydrogenase / 0.713
1jki NAIInositol-3-phosphate synthase 5.5.1.4 0.713
1pzh NADLactate dehydrogenase / 0.710
4oaq NDPR-specific carbonyl reductase / 0.709
1uxk NADMalate dehydrogenase / 0.708
1yqd NAPSinapyl alcohol dehydrogenase / 0.707
4b7x NAPProbable oxidoreductase / 0.707
4nfh NAJAlcohol dehydrogenase E chain 1.1.1.1 0.706
1i2b NADUDP-sulfoquinovose synthase, chloroplastic 3.13.1.1 0.705
1x7d NADPutative ornithine cyclodeaminase / 0.703
4i1i NADMalate dehydrogenase / 0.703
1lde NADAlcohol dehydrogenase E chain 1.1.1.1 0.702
3oq6 NAJAlcohol dehydrogenase E chain 1.1.1.1 0.702
1r37 NADNAD-dependent alcohol dehydrogenase 1.1.1.1 0.701
4wlu NADMalate dehydrogenase, mitochondrial 1.1.1.37 0.701
1u7h NADPutative ornithine cyclodeaminase / 0.700
2y05 NAPProstaglandin reductase 1 / 0.700
1a71 NADAlcohol dehydrogenase E chain 1.1.1.1 0.697
1h2b NAJNAD-dependent alcohol dehydrogenase / 0.695
1pzg A3DLactate dehydrogenase / 0.695
4cpd NADAlcohol dehydrogenase / 0.695
4j43 NADUncharacterized protein / 0.695
2oxi NADAlcohol dehydrogenase E chain 1.1.1.1 0.693
1b8u NADMalate dehydrogenase / 0.692
3cos NADAlcohol dehydrogenase 4 1.1.1.1 0.692
5kje NAJAlcohol dehydrogenase E chain 1.1.1.1 0.692
1hyh NADL-2-hydroxyisocaproate dehydrogenase / 0.691
3wle NAD(R)-specific carbonyl reductase / 0.690
4hfm NAP2-alkenal reductase (NADP(+)-dependent) / 0.690
4xq9 NADHomospermidine synthase 2.5.1.44 0.690
5kj6 NAJAlcohol dehydrogenase E chain 1.1.1.1 0.690
1sow NADL-lactate dehydrogenase 1.1.1.27 0.689
1ie3 NADMalate dehydrogenase / 0.688
5kjc NAJAlcohol dehydrogenase E chain 1.1.1.1 0.688
2fn7 NADLactate dehydrogenase, adjacent gene encodes predicted malate dehydrogenase / 0.687
5kcz NAJAlcohol dehydrogenase E chain 1.1.1.1 0.687
1agn NADAlcohol dehydrogenase class 4 mu/sigma chain 1.1.1.1 0.686
4nd3 NADLactate dehydrogenase, adjacent gene encodes predicted malate dehydrogenase / 0.686
4plp NADHomospermidine synthase 2.5.1.44 0.686
5cds NAJAlcohol dehydrogenase E chain 1.1.1.1 0.685
1lld NADL-lactate dehydrogenase 2 1.1.1.27 0.684
2nad NADFormate dehydrogenase / 0.684
4w6z 8IDAlcohol dehydrogenase 1 1.1.1.1 0.683
1gv0 NADMalate dehydrogenase / 0.682
4gkv NADAlcohol dehydrogenase, propanol-preferring 1.1.1.1 0.682
1hf3 NADAlcohol dehydrogenase E chain 1.1.1.1 0.681
5kjf NAJAlcohol dehydrogenase E chain 1.1.1.1 0.681
1u3v NADAlcohol dehydrogenase 1B 1.1.1.1 0.680
4rls NAIL-lactate dehydrogenase A chain 1.1.1.27 0.680
3d64 NADAdenosylhomocysteinase / 0.679
3h3j NADL-lactate dehydrogenase 1 1.1.1.27 0.679
3qvs NADMyo-inositol-1-phosphate synthase (Ino1) / 0.678
1bmd NADMalate dehydrogenase / 0.677
1ma0 NADAlcohol dehydrogenase class-3 1.1.1.1 0.677
5cdg NAJAlcohol dehydrogenase E chain 1.1.1.1 0.676
5cdt NAJAlcohol dehydrogenase E chain 1.1.1.1 0.676
5kcp NAJAlcohol dehydrogenase E chain 1.1.1.1 0.676
5kj1 NAJAlcohol dehydrogenase E chain 1.1.1.1 0.676
1hld NADAlcohol dehydrogenase E chain 1.1.1.1 0.674
4dwv NAJAlcohol dehydrogenase E chain 1.1.1.1 0.674
4k28 NADShikimate dehydrogenase family protein / 0.673
2eer NADNAD-dependent alcohol dehydrogenase 1.1.1.1 0.672
4dxh NAJAlcohol dehydrogenase E chain 1.1.1.1 0.672
4xrg NADHomospermidine synthase 2.5.1.44 0.672
5env NADAlcohol dehydrogenase 1 1.1.1.1 0.672
1axe NADAlcohol dehydrogenase E chain 1.1.1.1 0.671
1c1d NAIPhenylalanine dehydrogenase / 0.670
1t2d NADL-lactate dehydrogenase 1.1.1.27 0.670
1hdz NADAlcohol dehydrogenase 1B 1.1.1.1 0.669
3m6i NADL-arabinitol 4-dehydrogenase 1.1.1.12 0.669
3tqh NDPQuinone oxidoreductase / 0.669
1hsz NADAlcohol dehydrogenase 1B 1.1.1.1 0.668
4tvb NADHomospermidine synthase 2.5.1.44 0.668
2x0i NAIMalate dehydrogenase / 0.667
4j49 NADUncharacterized protein / 0.666
4rvu NDPProbable quinone reductase Qor (NADPH:quinone reductase) (Zeta-crystallin homolog protein) / 0.666
1ywg NADGlyceraldehyde-3-phosphate dehydrogenase / 0.665
5mdh NADMalate dehydrogenase, cytoplasmic 1.1.1.37 0.665
1p1h NADInositol-3-phosphate synthase 5.5.1.4 0.664
4nfs NAJAlcohol dehydrogenase E chain 1.1.1.1 0.664
1la2 NADInositol-3-phosphate synthase 5.5.1.4 0.662
3w8e NAD3-hydroxybutyrate dehydrogenase / 0.662
4wlo NAIMalate dehydrogenase, mitochondrial 1.1.1.37 0.662
1mgo NADAlcohol dehydrogenase E chain 1.1.1.1 0.661
2dt5 NADRedox-sensing transcriptional repressor Rex / 0.661
4c4o NADSADH / 0.661
1j5p NADL-aspartate dehydrogenase 1.4.1.21 0.659
1uxj NADMalate dehydrogenase / 0.659
3had NADHydroxyacyl-coenzyme A dehydrogenase, mitochondrial 1.1.1.35 0.659
3oet NADErythronate-4-phosphate dehydrogenase / 0.659
2d8a NADL-threonine 3-dehydrogenase / 0.658
2g82 NADGlyceraldehyde-3-phosphate dehydrogenase / 0.658
3geg NADShort-chain dehydrogenase/reductase SDR / 0.658
3pdu NAPGlyoxalate/3-oxopropanoate/4-oxobutanoate reductase / 0.658
4ng5 NAJAlcohol dehydrogenase E chain 1.1.1.1 0.658
4xwz FADFructosyl amine:oxygen oxidoreductase / 0.658
1yl7 NAI4-hydroxy-tetrahydrodipicolinate reductase / 0.657
4ejm NAPPutative zinc-binding dehydrogenase / 0.657
6adh NADAlcohol dehydrogenase E chain 1.1.1.1 0.657
3nt2 NADInositol 2-dehydrogenase/D-chiro-inositol 3-dehydrogenase 1.1.1.18 0.656
1yb5 NAPQuinone oxidoreductase 1.6.5.5 0.655
2a94 AP0L-lactate dehydrogenase 1.1.1.27 0.655
4jji NADAlcohol dehydrogenase class-3 / 0.655
4nd2 A3DLactate dehydrogenase, adjacent gene encodes predicted malate dehydrogenase / 0.655
4xqc NADHomospermidine synthase 2.5.1.44 0.655
4y1b NAPAntE / 0.655
1ht0 NADAlcohol dehydrogenase 1C 1.1.1.1 0.654
1bw9 NADPhenylalanine dehydrogenase / 0.653
1p0f NAPNADP-dependent alcohol dehydrogenase 1.1.1.2 0.653
2c0c NAPProstaglandin reductase 3 1 0.653
4cr8 NADN-acylmannosamine 1-dehydrogenase 1.1.1.233 0.653
2vhx NADAlanine dehydrogenase 1.4.1.1 0.652
4xb1 NDP319aa long hypothetical homoserine dehydrogenase / 0.652
2dfv NADL-threonine 3-dehydrogenase / 0.651
3qvx NADMyo-inositol-1-phosphate synthase (Ino1) / 0.651
2ome NADC-terminal-binding protein 2 / 0.650
4bv9 NDPKetimine reductase mu-crystallin 1.5.1.25 0.650