SMTL ID : 4ezq.1 (3 other biounits)

Crystal structure of the substrate binding domain of E.coli DnaK in complex with the C-terminal part of pyrrhocoricin (residues 12 to 20)

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.00 Å

Oligo State

homo-tetramer

Ligands

4 x PRO- PRO- ARG- PRO- ILE- TYR- ASN: Pyrrhocoricin(Non-covalent)

PRO-PRO-ARG-PRO-ILE-TYR-ASN.1: 16 residues within 4Å: Chain A: E.14, T.15, M.16, Q.36, V.37, F.38, S.39, T.40, Q.45, A.47, V.48, T.49, I.50, Q.68, N.70 Chain C: Q.146 18 PLIP interactions: 1 interactions with chain C, 17 interactions with chain A Hydrogen bonds: C:Q.146, A:M.16, A:S.39, A:S.39, A:Q.45, A:T.49, A:T.49, A:T.49, A:Q.68 Hydrophobic interactions: A:E.14, A:M.16, A:Q.36, A:F.38, A:F.38, A:F.38, A:A.47, A:I.50 Salt bridges: A:E.14 PRO-PRO-ARG-PRO-ILE-TYR-ASN.2: 16 residues within 4Å: Chain B: E.14, T.15, M.16, Q.36, V.37, F.38, S.39, T.40, Q.45, A.47, V.48, T.49, I.50, Q.68, N.70 Chain D: Q.146 18 PLIP interactions: 17 interactions with chain B, 1 interactions with chain D Hydrophobic interactions: B:E.14, B:M.16, B:Q.36, B:F.38, B:F.38, B:F.38, B:A.47, B:I.50 Hydrogen bonds: B:M.16, B:S.39, B:S.39, B:Q.45, B:T.49, B:T.49, B:T.49, B:Q.68, D:Q.146 Salt bridges: B:E.14 PRO-PRO-ARG-PRO-ILE-TYR-ASN.3: 16 residues within 4Å: Chain A: Q.146 Chain C: E.14, T.15, M.16, Q.36, V.37, F.38, S.39, T.40, Q.45, A.47, V.48, T.49, I.50, Q.68, N.70 17 PLIP interactions: 16 interactions with chain C, 1 interactions with chain A Hydrophobic interactions: C:E.14, C:M.16, C:Q.36, C:F.38, C:F.38, C:F.38, C:A.47, C:I.50 Hydrogen bonds: C:M.16, C:S.39, C:S.39, C:Q.45, C:T.49, C:T.49, C:Q.68, A:Q.146 Salt bridges: C:E.14 PRO-PRO-ARG-PRO-ILE-TYR-ASN.4: 16 residues within 4Å: Chain B: Q.146 Chain D: E.14, T.15, M.16, Q.36, V.37, F.38, S.39, T.40, Q.45, A.47, V.48, T.49, I.50, Q.68, N.70 17 PLIP interactions: 16 interactions with chain D, 1 interactions with chain B Hydrophobic interactions: D:E.14, D:M.16, D:Q.36, D:F.38, D:F.38, D:F.38, D:A.47, D:I.50 Hydrogen bonds: D:M.16, D:S.39, D:S.39, D:Q.45, D:T.49, D:T.49, D:Q.68, B:Q.146 Salt bridges: D:E.14

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Zahn, M. et al., Structural Studies on the Forward and Reverse Binding Modes of Peptides to the Chaperone DnaK. J.Mol.Biol. (2013)

Release Date

2013-04-17

Peptides

Chaperone protein DnaK: ABCD

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
A

C
A

D
A

Chaperone protein DnaK

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