- Coordinates
- PDB Format
- Method
- X-RAY DIFFRACTION 2.51 Å
- Oligo State
- homo-hexamer
- Ligands
- 3 x A- A- A- A- A- A: RNA (5'-R(P*AP*AP*AP*AP*AP*A)-3')(Non-covalent)
- 3 x U- U: RNA (5'-R(P*UP*U)-3')(Non-covalent)
U-U.2: 16 residues within 4Å:- Chain A: Q.8, Q.41, F.42, Y.55, K.56, H.57
- Chain B: F.42, Y.55, H.57
- Chain D: Q.8, Q.41, F.42, K.56, H.57
- Ligands: U-U.9, U-U.16
Protein-ligand interaction information (PLIP) not availableU-U.9: 16 residues within 4Å:- Chain C: Q.8, Q.41, F.42, Y.55, K.56, H.57
- Chain D: F.42, Y.55, H.57
- Chain F: Q.8, Q.41, F.42, K.56, H.57
- Ligands: U-U.2, U-U.16
Protein-ligand interaction information (PLIP) not availableU-U.16: 16 residues within 4Å:- Chain B: Q.8, Q.41, F.42, K.56, H.57
- Chain E: Q.8, Q.41, F.42, Y.55, K.56, H.57
- Chain F: F.42, Y.55, H.57
- Ligands: U-U.2, U-U.9
Protein-ligand interaction information (PLIP) not available- 15 x SO4: SULFATE ION(Non-functional Binders)
SO4.3: 5 residues within 4Å:- Chain A: S.23, Y.25, K.31, Q.33, V.63
5 PLIP interactions:5 interactions with chain A- Hydrogen bonds: A:S.23, A:Y.25, A:Q.33
- Water bridges: A:K.31
- Salt bridges: A:K.31
SO4.4: 3 residues within 4Å:- Chain A: R.16, R.17, R.19
3 PLIP interactions:3 interactions with chain A- Hydrogen bonds: A:R.19
- Salt bridges: A:R.16, A:R.17
SO4.5: 5 residues within 4Å:- Chain A: P.67, V.68
- Chain B: K.47, V.50, S.51
4 PLIP interactions:3 interactions with chain B, 1 interactions with chain A- Hydrogen bonds: B:S.51, B:S.51, A:V.68
- Salt bridges: B:K.47
SO4.6: 3 residues within 4Å:- Chain B: S.23, Y.25, K.31
5 PLIP interactions:5 interactions with chain B- Hydrogen bonds: B:S.23, B:Y.25
- Water bridges: B:S.23, B:Q.33
- Salt bridges: B:K.31
SO4.7: 3 residues within 4Å:- Chain B: P.10, N.13, R.17
2 PLIP interactions:2 interactions with chain B- Hydrogen bonds: B:N.13
- Salt bridges: B:R.17
SO4.10: 5 residues within 4Å:- Chain C: S.23, Y.25, K.31, Q.33, V.63
5 PLIP interactions:5 interactions with chain C- Hydrogen bonds: C:S.23, C:Y.25, C:Q.33
- Water bridges: C:K.31
- Salt bridges: C:K.31
SO4.11: 3 residues within 4Å:- Chain C: R.16, R.17, R.19
3 PLIP interactions:3 interactions with chain C- Hydrogen bonds: C:R.19
- Salt bridges: C:R.16, C:R.17
SO4.12: 5 residues within 4Å:- Chain C: P.67, V.68
- Chain D: K.47, V.50, S.51
4 PLIP interactions:3 interactions with chain D, 1 interactions with chain C- Hydrogen bonds: D:S.51, D:S.51, C:V.68
- Salt bridges: D:K.47
SO4.13: 3 residues within 4Å:- Chain D: S.23, Y.25, K.31
5 PLIP interactions:5 interactions with chain D- Hydrogen bonds: D:S.23, D:Y.25
- Water bridges: D:S.23, D:Q.33
- Salt bridges: D:K.31
SO4.14: 3 residues within 4Å:- Chain D: P.10, N.13, R.17
2 PLIP interactions:2 interactions with chain D- Hydrogen bonds: D:N.13
- Salt bridges: D:R.17
SO4.17: 5 residues within 4Å:- Chain E: S.23, Y.25, K.31, Q.33, V.63
5 PLIP interactions:5 interactions with chain E- Hydrogen bonds: E:S.23, E:Y.25, E:Q.33
- Water bridges: E:K.31
- Salt bridges: E:K.31
SO4.18: 3 residues within 4Å:- Chain E: R.16, R.17, R.19
3 PLIP interactions:3 interactions with chain E- Hydrogen bonds: E:R.19
- Salt bridges: E:R.16, E:R.17
SO4.19: 5 residues within 4Å:- Chain E: P.67, V.68
- Chain F: K.47, V.50, S.51
4 PLIP interactions:1 interactions with chain E, 3 interactions with chain F- Hydrogen bonds: E:V.68, F:S.51, F:S.51
- Salt bridges: F:K.47
SO4.20: 3 residues within 4Å:- Chain F: S.23, Y.25, K.31
5 PLIP interactions:5 interactions with chain F- Hydrogen bonds: F:S.23, F:Y.25
- Water bridges: F:S.23, F:Q.33
- Salt bridges: F:K.31
SO4.21: 3 residues within 4Å:- Chain F: P.10, N.13, R.17
2 PLIP interactions:2 interactions with chain F- Hydrogen bonds: F:N.13
- Salt bridges: F:R.17
- Links
- RCSB PDBe PDBe-KB PDBj PDBsum CATH PLIP
- Citation
- Schulz, E.C. et al., Intermolecular base stacking mediates RNA-RNA interaction in a crystal structure of the RNA chaperone Hfq. Sci Rep (2017)
- Release Date
- 2017-10-04
- Peptides
- RNA-binding protein Hfq: ABCDEF
- SMTL:PDB
- SMTL Chain Id:
PDB Chain Id:A
AB
BC
AD
BE
AF
B
- Coordinates
- PDB Format
- Method
- X-RAY DIFFRACTION 2.51 Å
- Oligo State
- homo-hexamer
- Ligands
- 3 x A- A- A- A- A- A: RNA (5'-R(P*AP*AP*AP*AP*AP*A)-3')(Non-covalent)
- 3 x U- U: RNA (5'-R(P*UP*U)-3')(Non-covalent)
- 15 x SO4: SULFATE ION(Non-functional Binders)
- Links
- RCSB PDBe PDBe-KB PDBj PDBsum CATH PLIP
- Citation
- Schulz, E.C. et al., Intermolecular base stacking mediates RNA-RNA interaction in a crystal structure of the RNA chaperone Hfq. Sci Rep (2017)
- Release Date
- 2017-10-04
- Peptides
- RNA-binding protein Hfq: ABCDEF
- SMTL:PDB
- SMTL Chain Id:
PDB Chain Id:A
AB
BC
AD
BE
AF
B