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

Crystal structure of the substrate binding domain of E.coli DnaK in complex with heliocin (residues 14 to 21)

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.00 Å

Oligo State

homo-tetramer

Ligands

4 x PRO- ARG- ARG- PRO- VAL- ILE- MET- ARG- ARG: Heliocin(Non-covalent)

PRO-ARG-ARG-PRO-VAL-ILE-MET-ARG-ARG.1: 27 residues within 4Å: Chain A: E.14, T.15, M.16, T.21, V.37, F.38, S.39, T.40, A.41, E.42, Q.45, A.47, V.48, T.49, I.50, Q.68, N.70, R.79, G.80, M.81, Q.83, H.153 Chain C: N.149, Q.150, H.153, L.154 Ligands: PRO-ARG-ARG-PRO-VAL-ILE-MET-ARG-ARG.3 18 PLIP interactions: 16 interactions with chain A, 2 interactions with chain C Hydrophobic interactions: A:F.38, A:A.41, A:A.47, A:I.50 Hydrogen bonds: A:M.16, A:V.37, A:S.39, A:S.39, A:T.49, A:T.49, A:Q.68, A:Q.68, A:R.79, A:H.153, C:N.149, C:Q.150 Salt bridges: A:E.14, A:E.42 PRO-ARG-ARG-PRO-VAL-ILE-MET-ARG-ARG.2: 27 residues within 4Å: Chain B: E.14, T.15, M.16, T.21, V.37, F.38, S.39, T.40, A.41, E.42, Q.45, A.47, V.48, T.49, I.50, Q.68, N.70, R.79, G.80, M.81, Q.83, H.153 Chain D: N.149, Q.150, H.153, L.154 Ligands: PRO-ARG-ARG-PRO-VAL-ILE-MET-ARG-ARG.4 18 PLIP interactions: 16 interactions with chain B, 2 interactions with chain D Hydrophobic interactions: B:F.38, B:A.41, B:A.47, B:I.50 Hydrogen bonds: B:M.16, B:V.37, B:S.39, B:S.39, B:T.49, B:T.49, B:Q.68, B:Q.68, B:R.79, B:H.153, D:N.149, D:Q.150 Salt bridges: B:E.14, B:E.42 PRO-ARG-ARG-PRO-VAL-ILE-MET-ARG-ARG.3: 27 residues within 4Å: Chain A: N.149, Q.150, H.153, L.154 Chain C: E.14, T.15, M.16, T.21, V.37, F.38, S.39, T.40, A.41, E.42, Q.45, A.47, V.48, T.49, I.50, Q.68, N.70, R.79, G.80, M.81, Q.83, H.153 Ligands: PRO-ARG-ARG-PRO-VAL-ILE-MET-ARG-ARG.1 19 PLIP interactions: 17 interactions with chain C, 2 interactions with chain A Hydrophobic interactions: C:F.38, C:A.41, C:A.47, C:I.50 Hydrogen bonds: C:M.16, C:V.37, C:S.39, C:S.39, C:T.49, C:T.49, C:T.49, C:Q.68, C:Q.68, C:R.79, C:H.153, A:N.149, A:Q.150 Salt bridges: C:E.14, C:E.42 PRO-ARG-ARG-PRO-VAL-ILE-MET-ARG-ARG.4: 27 residues within 4Å: Chain B: N.149, Q.150, H.153, L.154 Chain D: E.14, T.15, M.16, T.21, V.37, F.38, S.39, T.40, A.41, E.42, Q.45, A.47, V.48, T.49, I.50, Q.68, N.70, R.79, G.80, M.81, Q.83, H.153 Ligands: PRO-ARG-ARG-PRO-VAL-ILE-MET-ARG-ARG.2 19 PLIP interactions: 17 interactions with chain D, 2 interactions with chain B Hydrophobic interactions: D:F.38, D:A.41, D:A.47, D:I.50 Hydrogen bonds: D:M.16, D:V.37, D:S.39, D:S.39, D:T.49, D:T.49, D:T.49, D:Q.68, D:Q.68, D:R.79, D:H.153, B:N.149, B:Q.150 Salt bridges: D:E.14, D:E.42

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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