SMTL ID : 5ey1.1

Crystal structure of CodY from Staphylococcus aureus with GTP and Ile

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.00 Å

Oligo State

homo-dimer

Ligands

2 x ILE: ISOLEUCINE(Non-covalent)

ILE.1: 9 residues within 4Å: Chain A: R.78, M.82, P.89, Y.92, T.113, V.114, F.115, P.116, P.117 6 PLIP interactions: 5 interactions with chain A, 1 Ligand-Ligand interactions Hydrophobic interactions: A:Y.92 Hydrogen bonds: A:T.113 Water bridges: A:R.78, A:R.78, I.1 Salt bridges: A:R.78 ILE.3: 9 residues within 4Å: Chain B: R.78, M.82, P.89, Y.92, T.113, V.114, F.115, P.116, P.117 6 PLIP interactions: 1 Ligand-Ligand interactions, 5 interactions with chain B Water bridges: I.3, B:R.78, B:R.78 Hydrophobic interactions: B:Y.92 Hydrogen bonds: B:T.113 Salt bridges: B:R.78

2 x GTP: GUANOSINE-5'-TRIPHOSPHATE(Non-covalent)

GTP.2: 14 residues within 4Å: Chain A: V.39, D.40, F.41, S.60, R.61, R.62, K.64, L.66, E.170, I.171, R.173, E.174, K.175, E.178 20 PLIP interactions: 20 interactions with chain A Hydrogen bonds: A:V.39, A:F.41, A:S.60, A:R.61, A:R.62, A:E.170, A:R.173, A:K.175, A:K.175, A:E.178 Salt bridges: A:R.62, A:R.62, A:K.64, A:K.64, A:E.170, A:E.174, A:K.175, A:K.175 pi-Stacking: A:F.41 pi-Cation interactions: A:F.41 GTP.4: 13 residues within 4Å: Chain B: A.38, V.39, D.40, F.41, S.60, R.61, R.62, K.64, L.66, E.170, I.171, E.174, K.175 28 PLIP interactions: 28 interactions with chain B Hydrogen bonds: B:V.39, B:V.39, B:F.41, B:S.60, B:R.61, B:R.62, B:R.173, B:E.174, B:K.175, B:K.175 Water bridges: B:K.42, B:R.61, B:R.62, B:R.62, B:R.62, B:K.64, B:E.174 Salt bridges: B:R.62, B:R.62, B:K.64, B:K.64, B:E.170, B:E.174, B:K.175, B:K.175, B:K.175 pi-Stacking: B:F.41 pi-Cation interactions: B:F.41

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Han, A.R. et al., The structure of the pleiotropic transcription regulator CodY provides insight into its GTP-sensing mechanism. Nucleic Acids Res. (2016)

Release Date

2016-09-14

Peptides

GTP-sensing transcriptional pleiotropic repressor CodY: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

GTP-sensing transcriptional pleiotropic repressor CodY

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