SMTL ID : 4if4.1 (2 other biounits)

Crystal Structure of the Magnesium and beryllofluoride-activated VraR from Staphylococcus aureus

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.35 Å

Oligo State

homo-tetramer

Ligands

4 x MG: MAGNESIUM ION(Non-covalent)

MG.1: 4 residues within 4Å: Chain A: D.9, D.54, L.56 Ligands: BEF.2 5 PLIP interactions: 3 interactions with chain A, 2 Ligand-Water interactions Metal complexes: A:D.9, A:D.54, A:L.56, H2O.2, H2O.2 MG.4: 4 residues within 4Å: Chain B: D.9, D.54, L.56 Ligands: BEF.5 5 PLIP interactions: 3 interactions with chain B, 2 Ligand-Water interactions Metal complexes: B:D.9, B:D.54, B:L.56, H2O.3, H2O.3 MG.7: 4 residues within 4Å: Chain C: D.9, D.54, L.56 Ligands: BEF.8 5 PLIP interactions: 3 interactions with chain C, 2 Ligand-Water interactions Metal complexes: C:D.9, C:D.54, C:L.56, H2O.5, H2O.5 MG.10: 4 residues within 4Å: Chain D: D.9, D.54, L.56 Ligands: BEF.11 5 PLIP interactions: 3 interactions with chain D, 2 Ligand-Water interactions Metal complexes: D:D.9, D:D.54, D:L.56, H2O.6, H2O.7

4 x BEF: BERYLLIUM TRIFLUORIDE ION(Covalent)

BEF.2: 8 residues within 4Å: Chain A: D.54, L.55, L.56, T.82, S.83, F.84, K.104 Ligands: MG.1 No protein-ligand interaction detected (PLIP) BEF.5: 8 residues within 4Å: Chain B: D.54, L.55, L.56, T.82, S.83, F.84, K.104 Ligands: MG.4 No protein-ligand interaction detected (PLIP) BEF.8: 9 residues within 4Å: Chain C: D.9, D.54, L.55, L.56, T.82, S.83, F.84, K.104 Ligands: MG.7 No protein-ligand interaction detected (PLIP) BEF.11: 9 residues within 4Å: Chain D: D.9, D.54, L.55, L.56, T.82, S.83, F.84, K.104 Ligands: MG.10 No protein-ligand interaction detected (PLIP)

4 x SO4: SULFATE ION(Non-functional Binders)

SO4.3: 2 residues within 4Å: Chain A: H.44, K.47 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:H.44 Water bridges: A:K.47 Salt bridges: A:H.44, A:K.47 SO4.6: 2 residues within 4Å: Chain B: H.44, K.47 3 PLIP interactions: 3 interactions with chain B Hydrogen bonds: B:H.44 Salt bridges: B:H.44, B:K.47 SO4.9: 2 residues within 4Å: Chain C: H.44, K.47 2 PLIP interactions: 2 interactions with chain C Salt bridges: C:H.44, C:K.47 SO4.12: 3 residues within 4Å: Chain D: H.44, K.47, L.73 2 PLIP interactions: 2 interactions with chain D Salt bridges: D:H.44, D:K.47

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Leonard, P.G. et al., Phosphorylation-dependent conformational changes and domain rearrangements in Staphylococcus aureus VraR activation. Proc.Natl.Acad.Sci.USA (2013)

Release Date

2013-05-08

Peptides

Response regulator protein VraR: ABCD

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

C
C

D
D

Response regulator protein VraR

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