SMTL ID : 6gav.1

Extremely 'open' clamp structure of DNA gyrase: role of the Corynebacteriales GyrB specific insert

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.60 Å

Oligo State

homo-dimer

Ligands

5 x MES: 2-(N-MORPHOLINO)-ETHANESULFONIC ACID(Non-covalent)

MES.1: 11 residues within 4Å: Chain A: G.725, L.726, K.727, H.730, M.777, L.783, L.787, N.850, G.855, S.856, G.857 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:N.850, A:G.857 Salt bridges: A:K.727, A:H.730 pi-Cation interactions: A:H.730 MES.2: 6 residues within 4Å: Chain A: D.739, S.740, E.757, N.761, R.837, V.838 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:N.761 Salt bridges: A:D.739, A:E.757, A:R.837 MES.3: 13 residues within 4Å: Chain A: S.796, P.797, G.798, H.958, D.959, D.982, S.984, S.985, D.986, G.989, L.990 Chain B: K.469, S.470 6 PLIP interactions: 1 interactions with chain B, 5 interactions with chain A Salt bridges: B:K.469, A:H.958 Hydrogen bonds: A:S.796, A:G.798, A:D.982, A:S.984 MES.4: 13 residues within 4Å: Chain B: G.725, L.726, K.727, H.730, R.776, M.777, L.783, L.787, N.850, N.854, G.855, S.856, G.857 8 PLIP interactions: 8 interactions with chain B Hydrogen bonds: B:N.850, B:N.854, B:G.857, B:G.857 Salt bridges: B:K.727, B:H.730, B:R.776 pi-Cation interactions: B:H.730 MES.5: 7 residues within 4Å: Chain A: R.753 Chain B: D.739, S.740, E.757, N.761, R.837, V.838 5 PLIP interactions: 4 interactions with chain B, 1 interactions with chain A Hydrogen bonds: B:N.761, A:R.753 Salt bridges: B:D.739, B:E.757, B:R.837

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Petrella, S. et al., Overall Structures of Mycobacterium tuberculosis DNA Gyrase Reveal the Role of a Corynebacteriales GyrB-Specific Insert in ATPase Activity. Structure (2019)

Release Date

2019-02-20

Peptides

DNA gyrase subunit B,DNA gyrase subunit A: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

DNA gyrase subunit B,DNA gyrase subunit A

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