SMTL ID : 3ghz.1

2-C-methyl-D-erythritol 2,4-cyclodiphosphate synthase from Salmonella typhimurium

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.03 Å

Oligo State

homo-trimer

Ligands

2 x GOL: GLYCEROL(Non-functional Binders)

GOL.1: 6 residues within 4Å: Chain A: S.38, H.45, I.60, G.61, F.64, D.66 8 PLIP interactions: 7 interactions with chain A, 1 interactions with chain C Hydrogen bonds: A:S.38, A:I.60, A:D.66 Water bridges: A:S.38, A:D.66, A:D.66, A:D.66, C:E.138 GOL.6: 5 residues within 4Å: Chain C: S.38, I.60, G.61, F.64, D.66 7 PLIP interactions: 6 interactions with chain C, 1 interactions with chain B Hydrogen bonds: C:I.60 Water bridges: C:H.13, C:S.38, C:D.66, C:D.66, C:D.66, B:E.138

4 x MG: MAGNESIUM ION(Non-covalent)

MG.2: 1 residues within 4Å: Chain A: D.11 6 PLIP interactions: 1 interactions with chain A, 5 Ligand-Water interactions Metal complexes: A:D.11, H2O.1, H2O.2, H2O.2, H2O.7, H2O.7 MG.3: 3 residues within 4Å: Chain A: E.152 Chain B: E.152 Chain C: E.152 5 PLIP interactions: 2 interactions with chain A, 2 interactions with chain B, 1 interactions with chain C Metal complexes: A:E.152, A:E.152, B:E.152, B:E.152, C:E.152 MG.5: 2 residues within 4Å: Chain A: E.138 Chain B: D.11 6 PLIP interactions: 1 interactions with chain B, 5 Ligand-Water interactions Metal complexes: B:D.11, H2O.1, H2O.1, H2O.1, H2O.3, H2O.4 MG.7: 1 residues within 4Å: Chain C: D.11 6 PLIP interactions: 1 interactions with chain C, 5 Ligand-Water interactions Metal complexes: C:D.11, H2O.4, H2O.4, H2O.5, H2O.7, H2O.8

1 x POP: PYROPHOSPHATE 2-(Non-covalent)

POP.4: 9 residues within 4Å: Chain A: G.141, F.142, R.145 Chain B: G.141, F.142, R.145 Chain C: G.141, F.142, R.145 11 PLIP interactions: 4 interactions with chain B, 2 interactions with chain A, 5 interactions with chain C Hydrogen bonds: B:G.141, B:F.142, A:F.142, C:F.142 Water bridges: B:R.145, C:R.145, C:R.145, C:R.145 Salt bridges: B:R.145, A:R.145, C:R.145

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Osipiuk, J. et al., X-ray crystal structure of 2-C-methyl-D-erythritol 2,4-cyclodiphosphate synthase from Salmonella typhimurium. To be Published

Release Date

2009-03-17

Peptides

2-C-methyl-D-erythritol 2,4-cyclodiphosphate synthase: ABC

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

C
C

2-C-methyl-D-erythritol 2,4-cyclodiphosphate synthase

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