SMTL ID : 4ml0.2 (3 other biounits)

Crystal structure of E.coli DinJ-YafQ complex

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.10 Å

Oligo State

hetero-2-2-mer

Ligands

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

SO4.1: 4 residues within 4Å: Chain A: A.8, F.9, R.11 Chain C: K.19 5 PLIP interactions: 4 interactions with chain A, 1 interactions with chain C Hydrogen bonds: A:F.9 Water bridges: A:R.11, A:R.11 Salt bridges: A:R.11, C:K.19 SO4.2: 2 residues within 4Å: Chain A: S.34, R.38 3 PLIP interactions: 1 interactions with chain C, 2 interactions with chain A Hydrogen bonds: C:R.13, A:S.34 Salt bridges: A:R.38 SO4.3: 2 residues within 4Å: Chain A: N.58, Q.59 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:Q.59 Water bridges: A:N.58, A:L.60 SO4.4: 9 residues within 4Å: Chain A: P.51, F.52, D.53 Chain B: H.53, D.64, H.66, I.72, H.90, F.94 9 PLIP interactions: 5 interactions with chain A, 4 interactions with chain B Hydrogen bonds: A:D.53 Water bridges: A:L.54, A:L.54, A:L.54, A:R.55, B:D.64 Salt bridges: B:H.53, B:H.66, B:H.90 SO4.5: 4 residues within 4Å: Chain B: R.25, T.89, A.91, A.92 5 PLIP interactions: 5 interactions with chain B Hydrogen bonds: B:T.89 Water bridges: B:R.25, B:R.25, B:T.89 Salt bridges: B:R.25 SO4.6: 4 residues within 4Å: Chain A: E.69 Chain B: K.76, L.81, R.83 5 PLIP interactions: 1 interactions with chain A, 4 interactions with chain B Hydrogen bonds: A:E.69 Water bridges: B:K.76, B:K.76 Salt bridges: B:K.76, B:R.83 SO4.7: 5 residues within 4Å: Chain A: R.11, A.12, R.13 Chain C: S.34, R.38 10 PLIP interactions: 4 interactions with chain A, 6 interactions with chain C Hydrogen bonds: A:R.11, A:R.13, C:S.34 Water bridges: A:R.13, C:T.32, C:S.34, C:R.38, C:R.38 Salt bridges: A:R.13, C:R.38 SO4.8: 1 residues within 4Å: Chain C: R.46 2 PLIP interactions: 2 interactions with chain C Water bridges: C:R.46 Salt bridges: C:R.46 SO4.9: 4 residues within 4Å: Chain B: P.54, R.63 Chain D: P.54, R.63 2 PLIP interactions: 1 interactions with chain D, 1 interactions with chain B Salt bridges: D:R.63, B:R.63 SO4.10: 9 residues within 4Å: Chain C: P.51, F.52, D.53 Chain D: H.53, D.64, H.66, I.72, H.90, F.94 10 PLIP interactions: 6 interactions with chain C, 4 interactions with chain D Hydrogen bonds: C:P.51, C:D.53, C:D.53, D:D.64 Water bridges: C:L.54, C:L.54, C:R.55 Salt bridges: D:H.53, D:H.66, D:H.90

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Liang, Y. et al., Structural and Functional Characterization of Escherichia coli Toxin-Antitoxin Complex DinJ-YafQ. J.Biol.Chem. (2014)

Release Date

2014-06-25

Peptides

Predicted antitoxin of YafQ-DinJ toxin-antitoxin system: AC
Predicted toxin of the YafQ-DinJ toxin-antitoxin system: BD

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
E

C
G

B
F

D
H

Predicted antitoxin of YafQ-DinJ toxin-antitoxin system

Predicted toxin of the YafQ-DinJ toxin-antitoxin system

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