SMTL ID : 7bnr.1

Crystal structure of a ParB Q52A mutant from Myxococcus xanthus bound to CTPyS

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.70 Å

Oligo State

homo-dimer

Ligands

2 x UFQ: Cytosine 5'-[gamma-thio]triphosphate(Non-covalent)

UFQ.1: 25 residues within 4Å: Chain A: R.20, F.23, L.31, S.34, I.35, G.39, V.40, L.41, Q.42, A.57, G.58, E.59, R.60, R.61, E.92, N.93, R.96 Chain B: Q.42, V.91, E.92, Q.95, R.96, A.97 Ligands: MG.3, UFQ.4 22 PLIP interactions: 16 interactions with chain A, 6 interactions with chain B Hydrophobic interactions: A:L.31, B:V.91, B:Q.95 Hydrogen bonds: A:R.20, A:G.39, A:L.41, A:Q.42, A:G.58, A:E.59, A:R.60, A:R.61, A:N.93, A:N.93, B:A.97, B:A.97 Water bridges: A:R.96, B:E.92, B:R.96 Salt bridges: A:R.20, A:R.60, A:R.61, A:R.96 UFQ.4: 24 residues within 4Å: Chain A: V.91, E.92, Q.95, R.96, A.97 Chain B: R.20, F.23, L.31, S.34, I.35, G.39, V.40, L.41, Q.42, A.57, G.58, E.59, R.60, R.61, E.92, N.93, R.96 Ligands: UFQ.1, MG.5 23 PLIP interactions: 6 interactions with chain A, 17 interactions with chain B Hydrophobic interactions: A:V.91, A:Q.95, B:L.31 Hydrogen bonds: A:A.97, A:A.97, B:R.20, B:G.39, B:L.41, B:Q.42, B:Q.42, B:G.58, B:G.58, B:E.59, B:R.60, B:R.61, B:N.93 Water bridges: A:E.92, A:R.96, B:R.96 Salt bridges: B:R.20, B:R.60, B:R.61, B:R.96

1 x GOL: GLYCEROL(Non-functional Binders)

GOL.2: 5 residues within 4Å: Chain A: I.35, K.36, A.37, Q.38, G.39 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:K.36 Water bridges: A:G.39

2 x MG: MAGNESIUM ION(Non-covalent)

MG.3: 5 residues within 4Å: Chain A: R.20, E.92, N.93, R.96 Ligands: UFQ.1 2 PLIP interactions: 2 interactions with chain A Metal complexes: A:E.92, A:E.92 MG.5: 5 residues within 4Å: Chain B: R.20, E.92, N.93, R.96 Ligands: UFQ.4 2 PLIP interactions: 2 interactions with chain B Metal complexes: B:E.92, B:E.92

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Osorio-Valeriano, M. et al., The CTPase activity of ParB determines the size and dynamics of prokaryotic DNA partition complexes. Mol.Cell (2021)

Release Date

2021-09-08

Peptides

ParB family protein: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

ParB family protein