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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
1vru AAP Gag-Pol polyprotein 2.7.7.49

Complex with similar interaction patterns:

PDB ID HET Uniprot Name EC Number Binding Mode
Similarity		 Align
1vru AAPGag-Pol polyprotein 2.7.7.49 1.112
1hni AAAGag-Pol polyprotein 2.7.7.49 0.750
1n35 CH1RNA-directed RNA polymerase lambda-3 2.7.7.48 0.744
1n38 U3HRNA-directed RNA polymerase lambda-3 2.7.7.48 0.744
1wet GUNHTH-type transcriptional repressor PurR / 0.744
2cgw 3C3Serine/threonine-protein kinase Chk1 2.7.11.1 0.744
2d09 FLVBiflaviolin synthase CYP158A2 / 0.744
2fzk CTPAspartate carbamoyltransferase regulatory chain / 0.744
2jey HLOAcetylcholinesterase 3.1.1.7 0.744
2oap ANPType II secretion system protein (GspE-2) / 0.744
3cwq ADPParA family chromosome partitioning protein / 0.744
3f8p NADNADH oxidase/thioredoxin reductase / 0.744
3f8r NAPNADH oxidase/thioredoxin reductase / 0.744
3fzf ATPHeat shock cognate 71 kDa protein / 0.744
3u9d ATPActin, alpha skeletal muscle / 0.744
3ypi PGHTriosephosphate isomerase 5.3.1.1 0.744
4e5l DBHPolymerase acidic protein / 0.744
5bnt NAPAspartate-semialdehyde dehydrogenase 1.2.1.11 0.744
1hpz AAPGag-Pol polyprotein 2.7.7.49 0.729
1fp6 ADPNitrogenase iron protein 1 1.18.6.1 0.660
1h48 C5P2-C-methyl-D-erythritol 2,4-cyclodiphosphate synthase 4.6.1.12 0.660
1yra GDPGPN-loop GTPase PAB0955 / 0.660
2hru ADPPhosphoribosylformylglycinamidine synthase subunit PurL / 0.660
2xtn GTPGTPase IMAP family member 2 / 0.660
3fwy ADPLight-independent protochlorophyllide reductase iron-sulfur ATP-binding protein / 0.660
4cdg ADPBloom syndrome protein 3.6.4.12 0.660
4nxv GDPMitochondrial dynamics protein MID51 / 0.660
4nxx GDPMitochondrial dynamics protein MID51 / 0.660
4o3m ADPBloom syndrome protein 3.6.4.12 0.660
3di6 PDZGag-Pol polyprotein 2.7.7.49 0.655
1oyn ROLcAMP-specific 3',5'-cyclic phosphodiesterase 4D 3.1.4.53 0.651
4ans VGHALK tyrosine kinase receptor 2.7.10.1 0.651