SMTL ID : 3gib.1

Crystal Structure of the Complex of the E. coli Hfq with Poly(A)

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.40 Å

Oligo State

homo-hexamer

Ligands

2 x A- A- A- A- A- A- A- A- A: 5'-R(P*AP*AP*AP*AP*AP*AP*AP*AP*A)-3'(Non-covalent)

A-A-A-A-A-A-A-A-A.1: 44 residues within 4Å: Chain A: Y.24, G.28, I.29, K.30, L.31, Q.32, L.45, N.47, Q.51, S.59, T.60, V.62 Chain B: Y.24, L.25, N.27, G.28, I.29, K.30, L.31, Q.32, L.45, N.47, Q.51, S.59, T.60, V.62 Chain C: Y.24, L.25, G.28, I.29, K.30, L.31, Q.32, N.47, Q.51, T.60, V.62 Chain D: L.25, I.29, L.31, Q.51 Ligands: A-A-A-A-A-A-A-A-A.5, A-A-A-A-A-A-A-A-A.5, A-A-A-A-A-A-A-A-A.5 Protein-ligand interaction information (PLIP) not available A-A-A-A-A-A-A-A-A.5: 44 residues within 4Å: Chain A: L.25, I.29, L.31, Q.51 Chain D: Y.24, G.28, I.29, K.30, L.31, Q.32, L.45, N.47, Q.51, S.59, T.60, V.62 Chain E: Y.24, L.25, N.27, G.28, I.29, K.30, L.31, Q.32, L.45, N.47, Q.51, S.59, T.60, V.62 Chain F: Y.24, L.25, G.28, I.29, K.30, L.31, Q.32, N.47, Q.51, T.60, V.62 Ligands: A-A-A-A-A-A-A-A-A.1, A-A-A-A-A-A-A-A-A.1, A-A-A-A-A-A-A-A-A.1 Protein-ligand interaction information (PLIP) not available

6 x NHE: 2-[N-CYCLOHEXYLAMINO]ETHANE SULFONIC ACID(Non-covalent)(Covalent)

NHE.2: 4 residues within 4Å: Chain A: F.41, K.55 Chain B: H.56 Ligands: NHE.3 5 PLIP interactions: 2 interactions with chain B, 3 interactions with chain A Water bridges: B:H.56, A:H.56 Salt bridges: B:H.56 Hydrophobic interactions: A:F.41, A:F.41 NHE.3: 8 residues within 4Å: Chain A: F.41, Y.54, H.56 Chain F: Q.7, Q.40, F.41, K.55 Ligands: NHE.2 6 PLIP interactions: 3 interactions with chain F, 3 interactions with chain A Hydrophobic interactions: F:Q.40, A:F.41 Hydrogen bonds: F:Q.7 Water bridges: F:K.55, A:H.56 Salt bridges: A:H.56 NHE.4: 4 residues within 4Å: Chain B: Q.40, F.41 Chain C: F.41, H.56 3 PLIP interactions: 2 interactions with chain C, 1 interactions with chain B Hydrophobic interactions: C:F.41 Salt bridges: C:H.56 Water bridges: B:H.56 NHE.6: 4 residues within 4Å: Chain D: F.41, K.55 Chain E: H.56 Ligands: NHE.7 5 PLIP interactions: 3 interactions with chain D, 2 interactions with chain E Hydrophobic interactions: D:F.41, D:F.41 Water bridges: D:H.56, E:H.56 Salt bridges: E:H.56 NHE.7: 8 residues within 4Å: Chain C: Q.7, Q.40, F.41, K.55 Chain D: F.41, Y.54, H.56 Ligands: NHE.6 6 PLIP interactions: 3 interactions with chain C, 3 interactions with chain D Hydrophobic interactions: C:Q.40, D:F.41 Hydrogen bonds: C:Q.7 Water bridges: C:K.55, D:H.56 Salt bridges: D:H.56 NHE.8: 4 residues within 4Å: Chain E: Q.40, F.41 Chain F: F.41, H.56 3 PLIP interactions: 2 interactions with chain F, 1 interactions with chain E Hydrophobic interactions: F:F.41 Salt bridges: F:H.56 Water bridges: E:H.56

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Link, T.M. et al., Structure of Escherichia coli Hfq bound to polyriboadenylate RNA. Proc.Natl.Acad.Sci.USA (2009)

Release Date

2009-11-17

Peptides

Protein hfq: ABCDEF

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

C
C

D
A

E
B

F
C

Protein hfq

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