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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
5doz NDP JamJ

Complex with similar interaction patterns:

PDB ID HET Uniprot Name EC Number Binding Mode
Similarity		 Align
5doz NDPJamJ / 1.446
4hfm NAP2-alkenal reductase (NADP(+)-dependent) / 0.836
3jyn NDPQuinone oxidoreductase / 0.774
1qor NDPQuinone oxidoreductase 1 / 0.767
4rvu NDPProbable quinone reductase Qor (NADPH:quinone reductase) (Zeta-crystallin homolog protein) / 0.758
4y0k NAPAntE / 0.739
4y1b NAPAntE / 0.738
4oaq NDPR-specific carbonyl reductase / 0.723
1o8c NDPProbable acrylyl-CoA reductase AcuI 1.3.1.84 0.721
5dp2 NAPCurF / 0.711
2oby NAPQuinone oxidoreductase PIG3 1 0.704
3nx4 NAPPutative oxidoreductase / 0.697
2vna NAPProstaglandin reductase 2 1.3.1.48 0.695
2vq3 NAPMetalloreductase STEAP3 / 0.694
5dul NDP1-deoxy-D-xylulose 5-phosphate reductoisomerase / 0.691
2j3k NAPNADPH-dependent oxidoreductase 2-alkenal reductase 1.3.1.74 0.690
2c0c NAPProstaglandin reductase 3 1 0.687
3slk NDPPolyketide synthase extender module 2 / 0.682
4b7x NAPProbable oxidoreductase / 0.682
2zb3 NDPProstaglandin reductase 2 1.3.1.48 0.678
4e5m NAPPhosphonate dehydrogenase 1.20.1.1 0.678
2gsd NADFormate dehydrogenase / 0.676
5ees NAP4-hydroxy-tetrahydrodipicolinate reductase / 0.671
4ejm NAPPutative zinc-binding dehydrogenase / 0.669
4xq9 NADHomospermidine synthase 2.5.1.44 0.669
2nad NADFormate dehydrogenase / 0.668
2y05 NAPProstaglandin reductase 1 / 0.667
3wyc NAPMeso-diaminopimelate D-dehydrogenase 1.4.1.16 0.666
1pt9 TAPNAD(P) transhydrogenase, mitochondrial 1.6.1.2 0.665
4dlb NADS-(hydroxymethyl)glutathione dehydrogenase / 0.665
4g5q GDPGuanine nucleotide-binding protein G(i) subunit alpha-1 / 0.665
1lua NAPBifunctional protein MdtA 1.5.1.5 0.664
2c29 NAPDihydroflavonol 4-reductase / 0.664
4nu5 NADPhosphonate dehydrogenase 1.20.1.1 0.664
3qwb NDPProbable quinone oxidoreductase 1.6.5.5 0.663
1yqd NAPSinapyl alcohol dehydrogenase / 0.661
2ydx NAPMethionine adenosyltransferase 2 subunit beta / 0.661
4jbi NDPAlcohol dehydrogenase (Zinc) / 0.661
3oet NADErythronate-4-phosphate dehydrogenase / 0.660
5kje NAJAlcohol dehydrogenase E chain 1.1.1.1 0.659
1e5q NDPSaccharopine dehydrogenase [NADP(+), L-glutamate-forming] 1.5.1.10 0.658
1x7d NADPutative ornithine cyclodeaminase / 0.658
3pdu NAPGlyoxalate/3-oxopropanoate/4-oxobutanoate reductase / 0.658
5kjf NAJAlcohol dehydrogenase E chain 1.1.1.1 0.658
3pef NAPGlyoxalate/3-oxopropanoate/4-oxobutanoate reductase / 0.656
1djl NAPNAD(P) transhydrogenase, mitochondrial 1.6.1.2 0.655
3abi NADUncharacterized protein / 0.655
3e78 TPPHigh affinity transport system protein p37 / 0.655
3rku NAPNADP-dependent 3-hydroxy acid dehydrogenase / 0.655
3tqh NDPQuinone oxidoreductase / 0.655
3w6u NAP6-phosphogluconate dehydrogenase, NAD-binding protein / 0.655
5bnt NAPAspartate-semialdehyde dehydrogenase 1.2.1.11 0.655
3mvq NDPGlutamate dehydrogenase 1, mitochondrial 1.4.1.3 0.654
4xye NADFormate dehydrogenase / 0.654
4lcj NADC-terminal-binding protein 2 / 0.653
1nyt NAPShikimate dehydrogenase (NADP(+)) / 0.652
2nnl NAPDihydroflavonol 4-reductase 1.1.1.219 0.650