Crystal structure of menaquinone synthesis protein MenD from E. coli in complex with oxoglutarate DOI:10.2210/pdb3hww/pdb

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Primary Citation       Related Citations in PDB Entry (REMARK 1) Hide     Molecular Description Hide Classification: Transferase Structure Weight: 124715.91 Molecule: 2-succinyl-5-enolpyruvyl-6-hydroxy-3-cyclohexene-1-carboxylate synthase Polymer: 1 Type: protein Length: 556 Chains: A, D EC#: 2.2.1.9    Mutation: P36L Organism Escherichia coli K-12 Gene Names menD b2264 JW5374 UniProtKB:   Protein Feature View | Search PDB | P17109         Source Hide Polymer: 1 Scientific Name: Escherichia coli k-12   Taxonomy   Expression System: Escherichia coli       Related PDB Entries Hide Identifier Details 3FLM  The same protein complexed with oxoglutarate      Ligand Chemical Component Hide Identifier Formula Name Interactions AKG Search  Download  C5 H6 O5 2-OXOGLUTARIC ACID   Ligand Explorer CL Search  Download  Cl CHLORIDE ION   Ligand Explorer GOL Search  Download  C3 H8 O3 GLYCEROL   Ligand Explorer MG Search  Download  Mg MAGNESIUM ION   Ligand Explorer NA Search  Download  Na SODIUM ION   Ligand Explorer     External Ligand Annotations Hide Identifier   Binding Affinity (Sequence Identity %) AKG Search  Download  N/A in BindingDB Kd: 75 nM - data from BindingMOAD   Kd: 75 nM - data from PDBbind       External Domain Annotations Hide Pfam Classification: 2 Domains - data from Pfam   GO Terms: 7 Terms - data from GO      Structural Biology Knowledgebase Data Hide     Data in orange boxes are gathered from external resources (when available). Reset Layout

Biological Assembly            View in 3D More Images... Biological assembly 1 assigned by authors and generated by PISA (software) Downloadable viewers: Simple Viewer Protein Workshop Ligand Explorer Kiosk Viewer Other Viewers  KiNG WebMol QuickPDB FirstGlance         MyPDB Personal Annotations Hide     Deposition Summary Hide Authors:   Priyadarshi, A.,  Hwang, K.Y. Deposition:   2009-06-19 Release:   2009-11-03 Last Modified (REVDAT):   2011-07-13     Revision History    Hide Mouse over text for details 2011-07-13 Non-polymer description 2011-07-13 Version format compliance     Experimental Details Hide Method:   X-RAY DIFFRACTION Exp. Data:   Structure Factors EDS   Resolution[Å]:   1.95 R-Value: 0.211 (obs.) R-Free: 0.255 Space Group: P 41 21 2 Unit Cell:   Length [Å] Angles [°] a = 117.91 α = 90.00  b = 117.91 β = 90.00  c = 175.28 γ = 90.00