SMTL ID : 6zhl.1

Crystal Structure of Staphylococcus aureus RsgA bound to ppGpp.

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.94 Å

Oligo State

monomer

Ligands

1 x G4P: GUANOSINE-5',3'-TETRAPHOSPHATE(Non-covalent)

G4P.1: 14 residues within 4Å: Chain A: K.133, D.135, K.136, G.163, N.164, R.168, Q.185, S.186, G.187, V.188, G.189, K.190, S.191, T.192 17 PLIP interactions: 17 interactions with chain A Hydrogen bonds: A:K.133, A:K.133, A:N.164, A:N.164, A:R.168, A:Q.185, A:G.187, A:V.188, A:G.189, A:K.190, A:S.191, A:S.191, A:T.192, A:T.192 Water bridges: A:K.136 Salt bridges: A:D.135, A:K.190

1 x ZN: ZINC ION(Non-covalent)

ZN.2: 4 residues within 4Å: Chain A: C.265, C.270, H.272, C.278 4 PLIP interactions: 4 interactions with chain A Metal complexes: A:C.265, A:C.270, A:H.272, A:C.278

7 x EDO: 1,2-ETHANEDIOL(Non-functional Binders)

EDO.3: 6 residues within 4Å: Chain A: R.88, I.119, Y.123, F.238, A.240, D.242 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:Y.123, A:A.240, A:D.242 EDO.4: 4 residues within 4Å: Chain A: S.109, T.110, Q.111 Ligands: EDO.5 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:T.110, A:T.110, A:Q.111 EDO.5: 3 residues within 4Å: Chain A: F.292, H.296 Ligands: EDO.4 No protein-ligand interaction detected (PLIP) EDO.6: 4 residues within 4Å: Chain A: I.151, N.154, G.287, A.290 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:N.154 EDO.7: 5 residues within 4Å: Chain A: R.128, E.158, A.174, W.175, P.176 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:R.128, A:R.128, A:E.158, A:E.158, A:W.175 EDO.8: 7 residues within 4Å: Chain A: N.154, I.155, E.257, R.260, Y.261, N.288, I.289 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:N.154, A:R.260, A:N.288 Water bridges: A:A.290 EDO.9: 3 residues within 4Å: Chain A: E.153, T.159, E.160 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:E.153, A:T.159

1 x PGE: TRIETHYLENE GLYCOL(Non-functional Binders)

PGE.10: 5 residues within 4Å: Chain A: F.51, K.55, F.56, V.79, R.82 1 PLIP interactions: 1 interactions with chain A Water bridges: A:R.82

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Bennison, D.J. et al., The Stringent Response Inhibits 70S Ribosome Formation in Staphylococcus aureus by Impeding GTPase-Ribosome Interactions. Mbio (2021)

Release Date

2021-06-30

Peptides

Small ribosomal subunit biogenesis GTPase RsgA: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

Small ribosomal subunit biogenesis GTPase RsgA

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