SMTL ID : 4ezs.3 (4 other biounits)

Crystal structure of the substrate binding domain of E.coli DnaK in complex with metchnikowin (residues 20 to 26)

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.90 Å

Oligo State

homo-dimer

Ligands

2 x PRO- ARG- PRO- GLY- PRO- ILE- TYR- TYR: Metchnikowin(Non-covalent)

PRO-ARG-PRO-GLY-PRO-ILE-TYR-TYR.1: 18 residues within 4Å: Chain A: E.14, T.15, M.16, G.17, G.18, V.37, F.38, S.39, A.41, Q.45, A.47, V.48, T.49, R.79, G.80, M.81, P.82, H.153 15 PLIP interactions: 15 interactions with chain A Hydrophobic interactions: A:V.37, A:F.38 Hydrogen bonds: A:M.16, A:G.17, A:G.18, A:S.39, A:S.39, A:A.41, A:Q.45, A:T.49, A:T.49, A:G.80, A:G.80, A:H.153 Salt bridges: A:E.14 PRO-ARG-PRO-GLY-PRO-ILE-TYR-TYR.3: 18 residues within 4Å: Chain B: E.14, T.15, M.16, G.17, G.18, V.37, F.38, S.39, A.41, Q.45, A.47, V.48, T.49, R.79, G.80, M.81, P.82, H.153 16 PLIP interactions: 16 interactions with chain B Hydrophobic interactions: B:V.37, B:F.38 Hydrogen bonds: B:M.16, B:G.17, B:G.18, B:S.39, B:S.39, B:A.41, B:Q.45, B:A.47, B:T.49, B:T.49, B:G.80, B:G.80, B:H.153 Salt bridges: B:E.14

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

SO4.2: 2 residues within 4Å: Chain A: R.57, N.134 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:N.134 Water bridges: A:R.57 Salt bridges: A:R.57 SO4.4: 2 residues within 4Å: Chain B: R.57, N.134 3 PLIP interactions: 3 interactions with chain B Hydrogen bonds: B:N.134 Water bridges: B:R.57 Salt bridges: B:R.57

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Zahn, M. et al., Structural studies of DnaK in complex with proline rich antimicrobial peptides reveal two different peptide binding modes. To be Published

Release Date

2013-04-24

Peptides

Chaperone protein DnaK: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
A

Chaperone protein DnaK

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