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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
4ivo ACJ Protoporphyrinogen oxidase 1.3.3.4

Complex with similar interaction patterns:

PDB ID HET Uniprot Name EC Number Binding Mode
Similarity		 Align
4ivo ACJProtoporphyrinogen oxidase 1.3.3.4 0.918
3nks ACJProtoporphyrinogen oxidase 1.3.3.4 0.780
1drt PCVClavaminate synthase 1 1.14.11.21 0.744
1g6o ADPCag alpha / 0.744
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
1y56 ATPUncharacterized protein / 0.744
2gr0 ADPFerredoxin reductase / 0.744
2hs4 ACPPhosphoribosylformylglycinamidine synthase subunit PurL / 0.744
2hv7 ADPSerine/threonine-protein phosphatase 2A activator 5.2.1.8 0.744
3cwq ADPParA family chromosome partitioning protein / 0.744
3gz3 ORODihydroorotate dehydrogenase (fumarate) / 0.744
3kjg ADPCO dehydrogenase/acetyl-CoA synthase complex, accessory protein CooC / 0.744
3sop GDPNeuronal-specific septin-3 / 0.744
3wwm ADP[LysW]-aminoadipate kinase / 0.744
4a8m ATPRNA-directed RNA polymerase 2.7.7.48 0.744
4ig8 DTP2'-5'-oligoadenylate synthase 1 / 0.744
5cyp GSPSeptin-9 / 0.744
1f5n GNPGuanylate-binding protein 1 / 0.660
1fp6 ADPNitrogenase iron protein 1 1.18.6.1 0.660
1ky2 GNPGTP-binding protein YPT7 / 0.660
1wdt GTPElongation factor G (EF-G-2) / 0.660
1yra GDPGPN-loop GTPase PAB0955 / 0.660
2hru ADPPhosphoribosylformylglycinamidine synthase subunit PurL / 0.660
2xka GSPCell division protein FtsZ / 0.660
3g8a SAHRibosomal RNA small subunit methyltransferase G / 0.660
3ieu GDPGTPase Era / 0.660
3tjz GNPADP-ribosylation factor 1 / 0.660
3vp6 HLDGlutamate decarboxylase 1 4.1.1.15 0.660
4g01 GDPRas-related protein RABF2b / 0.660
4goj GNPADP-ribosylation factor-like protein 3 / 0.660
4hi0 GDPUrease accessory protein UreG / 0.660
4uxj TTPThymidine kinase / 0.660