SMTL ID : 4mml.1

D40A Hfq from Pseudomonas aeruginosa

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 1.80 Å

Oligo State

homo-hexamer

Ligands

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

SO4.1: 7 residues within 4Å: Chain A: A.40, Q.41, F.42, V.43 Chain E: S.6, L.7, Q.8 7 PLIP interactions: 4 interactions with chain E, 3 interactions with chain A Hydrogen bonds: E:S.6, E:L.7, E:Q.8, E:Q.8, A:Q.41, A:F.42, A:V.43 SO4.4: 7 residues within 4Å: Chain B: A.40, Q.41, F.42, V.43 Chain F: S.6, L.7, Q.8 7 PLIP interactions: 4 interactions with chain F, 3 interactions with chain B Hydrogen bonds: F:S.6, F:L.7, F:Q.8, F:Q.8, B:Q.41, B:F.42, B:V.43 SO4.7: 7 residues within 4Å: Chain C: A.40, Q.41, F.42, V.43 Chain D: S.6, L.7, Q.8 7 PLIP interactions: 4 interactions with chain D, 3 interactions with chain C Hydrogen bonds: D:S.6, D:L.7, D:Q.8, D:Q.8, C:Q.41, C:F.42, C:V.43 SO4.10: 7 residues within 4Å: Chain B: S.6, L.7, Q.8 Chain D: A.40, Q.41, F.42, V.43 7 PLIP interactions: 4 interactions with chain B, 3 interactions with chain D Hydrogen bonds: B:S.6, B:L.7, B:Q.8, B:Q.8, D:Q.41, D:F.42, D:V.43 SO4.13: 7 residues within 4Å: Chain C: S.6, L.7, Q.8 Chain E: A.40, Q.41, F.42, V.43 7 PLIP interactions: 4 interactions with chain C, 3 interactions with chain E Hydrogen bonds: C:S.6, C:L.7, C:Q.8, C:Q.8, E:Q.41, E:F.42, E:V.43 SO4.16: 7 residues within 4Å: Chain A: S.6, L.7, Q.8 Chain F: A.40, Q.41, F.42, V.43 7 PLIP interactions: 3 interactions with chain F, 4 interactions with chain A Hydrogen bonds: F:Q.41, F:F.42, F:V.43, A:S.6, A:L.7, A:Q.8, A:Q.8

6 x MG: MAGNESIUM ION(Non-functional Binders)

MG.2: 5 residues within 4Å: Ligands: MG.5, MG.8, MG.11, MG.14, MG.17 No protein-ligand interaction detected (PLIP) MG.5: 5 residues within 4Å: Ligands: MG.2, MG.8, MG.11, MG.14, MG.17 No protein-ligand interaction detected (PLIP) MG.8: 5 residues within 4Å: Ligands: MG.2, MG.5, MG.11, MG.14, MG.17 No protein-ligand interaction detected (PLIP) MG.11: 5 residues within 4Å: Ligands: MG.2, MG.5, MG.8, MG.14, MG.17 No protein-ligand interaction detected (PLIP) MG.14: 5 residues within 4Å: Ligands: MG.2, MG.5, MG.8, MG.11, MG.17 No protein-ligand interaction detected (PLIP) MG.17: 5 residues within 4Å: Ligands: MG.2, MG.5, MG.8, MG.11, MG.14 No protein-ligand interaction detected (PLIP)

6 x U: URIDINE-5'-MONOPHOSPHATE(Non-covalent)

U.3: 10 residues within 4Å: Chain A: Q.8, Q.41, F.42, K.56, H.57 Chain F: F.42, Y.55, H.57 Ligands: U.15, U.18 Protein-ligand interaction information (PLIP) not available U.6: 10 residues within 4Å: Chain B: Q.8, Q.41, F.42, K.56, H.57 Chain D: F.42, Y.55, H.57 Ligands: U.12, U.18 Protein-ligand interaction information (PLIP) not available U.9: 10 residues within 4Å: Chain C: Q.8, Q.41, F.42, K.56, H.57 Chain E: F.42, Y.55, H.57 Ligands: U.12, U.15 Protein-ligand interaction information (PLIP) not available U.12: 10 residues within 4Å: Chain C: F.42, Y.55, H.57 Chain D: Q.8, Q.41, F.42, K.56, H.57 Ligands: U.6, U.9 Protein-ligand interaction information (PLIP) not available U.15: 10 residues within 4Å: Chain A: F.42, Y.55, H.57 Chain E: Q.8, Q.41, F.42, K.56, H.57 Ligands: U.3, U.9 Protein-ligand interaction information (PLIP) not available U.18: 10 residues within 4Å: Chain B: F.42, Y.55, H.57 Chain F: Q.8, Q.41, F.42, K.56, H.57 Ligands: U.3, U.6 8 PLIP interactions: 5 interactions with chain F, 3 interactions with chain B Hydrophobic interactions: F:Q.41, F:F.42 Hydrogen bonds: F:Q.8, F:Q.41 Water bridges: F:K.56, B:F.42, B:H.57 pi-Stacking: B:F.42

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Murina, V.N. et al., Effect of conserved intersubunit amino Acid substitutions on hfq protein structure and stability. Biochemistry Mosc. (2014)

Release Date

2014-07-09

Peptides

Protein hfq: ABCDEF

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
A

C
A

D
A

E
A

F
A

Protein hfq