SMTL ID : 3qnj.3 (2 other biounits)

Crystal structure of the substrate binding domain of E.coli DnaK in complex with the antimicrobial peptide oncocin

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.28 Å

Oligo State

hetero-2-2-mer

Ligands

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

SO4.1: 2 residues within 4Å: Chain A: K.114, S.116 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:S.116 Water bridges: A:S.116 Salt bridges: A:K.114 SO4.2: 4 residues within 4Å: Chain A: R.59, R.148, K.189, E.191 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:E.191, A:E.191 Salt bridges: A:R.59, A:R.148 SO4.3: 6 residues within 4Å: Chain A: E.14, T.15, M.16, G.17, G.18 Chain B: P.8 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:G.17, A:G.18 SO4.4: 2 residues within 4Å: Chain A: N.70, D.72 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:N.70 Water bridges: A:N.70 SO4.5: 3 residues within 4Å: Chain C: N.63, K.64, S.65 2 PLIP interactions: 2 interactions with chain C Hydrogen bonds: C:S.65 Salt bridges: C:K.64 SO4.6: 5 residues within 4Å: Chain C: M.16, G.17, G.18 Chain D: P.8, R.9 4 PLIP interactions: 2 interactions with chain C, 2 interactions with chain D Hydrogen bonds: C:G.17, C:G.18, D:R.9 Salt bridges: D:R.9

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Knappe, D. et al., Rational Design of Oncocin Derivatives with Superior Protease Stabilities and Antibacterial Activities Based on the High-Resolution Structure of the Oncocin-DnaK Complex. Chembiochem (2011)

Release Date

2011-03-23

Peptides

Chaperone protein DnaK: AC
antimicrobial peptide oncocin: BD

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
B

C
A

B
D

D
C

Chaperone protein DnaK

antimicrobial peptide oncocin

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