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

Crystal structure of the substrate binding domain of E.coli DnaK in complex with the designer peptide ELPLVKI

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.05 Å

Oligo State

homo-tetramer

Ligands

4 x GLU- LEU- PRO- LEU- VAL- LYS- ILE: synthetic peptide ELPLVKI(Non-covalent)

GLU-LEU-PRO-LEU-VAL-LYS-ILE.1: 25 residues within 4Å: Chain A: I.13, E.14, T.15, M.16, T.21, Q.36, V.37, F.38, S.39, T.40, A.41, E.42, Q.45, S.46, A.47, V.48, T.49, I.50, N.70, G.80, I.84, V.86 Chain C: Q.146, Q.150, H.153 23 PLIP interactions: 20 interactions with chain A, 3 interactions with chain C Hydrophobic interactions: A:I.13, A:F.38, A:F.38, A:A.41, A:E.42, A:Q.45, A:V.48, A:I.50, A:I.84, A:V.86, C:Q.150 Hydrogen bonds: A:M.16, A:S.39, A:S.39, A:Q.45, A:S.46, A:A.47, A:A.47, A:T.49, A:T.49, A:N.70, C:Q.146, C:Q.150 GLU-LEU-PRO-LEU-VAL-LYS-ILE.2: 25 residues within 4Å: Chain B: I.13, E.14, T.15, M.16, T.21, Q.36, V.37, F.38, S.39, T.40, A.41, E.42, Q.45, S.46, A.47, V.48, T.49, I.50, N.70, G.80, I.84, V.86 Chain D: Q.146, Q.150, H.153 23 PLIP interactions: 3 interactions with chain D, 20 interactions with chain B Hydrophobic interactions: D:Q.150, B:I.13, B:F.38, B:F.38, B:A.41, B:E.42, B:Q.45, B:V.48, B:I.50, B:I.84, B:V.86 Hydrogen bonds: D:Q.146, D:Q.150, B:M.16, B:S.39, B:S.39, B:Q.45, B:S.46, B:A.47, B:A.47, B:T.49, B:T.49, B:N.70 GLU-LEU-PRO-LEU-VAL-LYS-ILE.3: 25 residues within 4Å: Chain A: Q.146, Q.150, H.153 Chain C: I.13, E.14, T.15, M.16, T.21, Q.36, V.37, F.38, S.39, T.40, A.41, E.42, Q.45, S.46, A.47, V.48, T.49, I.50, N.70, G.80, I.84, V.86 24 PLIP interactions: 21 interactions with chain C, 3 interactions with chain A Hydrophobic interactions: C:I.13, C:F.38, C:F.38, C:A.41, C:E.42, C:Q.45, C:V.48, C:I.50, C:I.84, C:V.86, A:Q.150 Hydrogen bonds: C:M.16, C:S.39, C:S.39, C:Q.45, C:S.46, C:A.47, C:T.49, C:T.49, C:T.49, C:T.49, C:N.70, A:Q.146, A:Q.150 GLU-LEU-PRO-LEU-VAL-LYS-ILE.4: 25 residues within 4Å: Chain B: Q.146, Q.150, H.153 Chain D: I.13, E.14, T.15, M.16, T.21, Q.36, V.37, F.38, S.39, T.40, A.41, E.42, Q.45, S.46, A.47, V.48, T.49, I.50, N.70, G.80, I.84, V.86 24 PLIP interactions: 21 interactions with chain D, 3 interactions with chain B Hydrophobic interactions: D:I.13, D:F.38, D:F.38, D:A.41, D:E.42, D:Q.45, D:V.48, D:I.50, D:I.84, D:V.86, B:Q.150 Hydrogen bonds: D:M.16, D:S.39, D:S.39, D:Q.45, D:S.46, D:A.47, D:T.49, D:T.49, D:T.49, D:T.49, D:N.70, B:Q.146, B:Q.150

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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