5EJ8: EcMenD-ThDP-Mn2+ complex structure soaked with 2-ketoglutarate for 2 min

PDB ID: 5EJ8Download
MMDB ID: 139719
PDB Deposition Date: 2015/11/1
Updated in MMDB: 2016/07
Experimental Method:
x-ray diffraction
Resolution: 1.34  Å
Source Organism:
Similar Structures:
Biological Unit for 5EJ8: dimeric; determined by author and by software (PISA)
Molecular Components in 5EJ8
Label Count Molecule
Proteins (2 molecules)
2
2-succinyl-5-enolpyruvyl-6-hydroxy-3-cyclohexene-1-carboxylate Synthase
(Gene symbol: menD)
Molecule annotation
Chemicals and Non-standard biopolymers (32 molecules)
1
2
(4S)-4-{3-[(4-amino-2-methylpyrimidin-5-yl)methyl]-5-(2-{[(S)-hydroxy(phosphonooxy)phosphoryl]oxy}ethyl)-4-methyl-1,3lambda~5~-thiazol-2-yl}-4-hydroxybutanoic acid(4S)-4-{3-[(4-amino-2-methylpyrimidin-5-yl)methyl]-5-(2-{[(S)-hydroxy(phosphonooxy)phosphoryl]oxy}ethyl)-4-methyl-1,3lambda~5~-thiazol-2-yl}-4-hydroxybutanoic acid
2
2
MANGANESE (II) IONMANGANESE (II) ION
3
4
MAGNESIUM IONMAGNESIUM ION
4
3
GLYCEROLGLYCEROL
5
8
1,2-ETHANEDIOL1,2-ETHANEDIOL
6
13
FORMIC ACIDFORMIC ACID
* Click molecule labels to explore molecular sequence information.
Citing MMDB
Madej T, Lanczycki CJ, Zhang D, Thiessen PA, Geer RC, Marchler-Bauer A, Bryant SH. " MMDB and VAST+: tracking structural similarities between macromolecular complexes. Nucleic Acids Res. 2014 Jan; 42(Database issue):D297-303