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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
4mmd 29E Na(+):neurotransmitter symporter (Snf family)

Complex with similar interaction patterns:

PDB ID HET Uniprot Name EC Number Binding Mode
Similarity		 Align
4mmd 29ENa(+):neurotransmitter symporter (Snf family) / 0.991
3elu SAMMethyltransferase / 0.666
4o3m ADPBloom syndrome protein 3.6.4.12 0.663
3fwy ADPLight-independent protochlorophyllide reductase iron-sulfur ATP-binding protein / 0.662
1n35 CH1RNA-directed RNA polymerase lambda-3 2.7.7.48 0.660
1n38 U3HRNA-directed RNA polymerase lambda-3 2.7.7.48 0.660
1nmd ATPMajor actin / 0.660
1wet GUNHTH-type transcriptional repressor PurR / 0.660
2cgw 3C3Serine/threonine-protein kinase Chk1 2.7.11.1 0.660
2d09 FLVBiflaviolin synthase CYP158A2 / 0.660
2fzk CTPAspartate carbamoyltransferase regulatory chain / 0.660
2jey HLOAcetylcholinesterase 3.1.1.7 0.660
2oap ANPType II secretion system protein (GspE-2) / 0.660
2zs9 ADPPantothenate kinase 2.7.1.33 0.660
3f8p NADNADH oxidase/thioredoxin reductase / 0.660
3f8r NAPNADH oxidase/thioredoxin reductase / 0.660
3ypi PGHTriosephosphate isomerase 5.3.1.1 0.660
4e5l DBHPolymerase acidic protein / 0.660
5bnt NAPAspartate-semialdehyde dehydrogenase 1.2.1.11 0.660
4cdg ADPBloom syndrome protein 3.6.4.12 0.656
4nxx GDPMitochondrial dynamics protein MID51 / 0.655
3kjg ADPCO dehydrogenase/acetyl-CoA synthase complex, accessory protein CooC / 0.652
1fp6 ADPNitrogenase iron protein 1 1.18.6.1 0.650