- Coordinates
- PDB Format
- Method
- X-RAY DIFFRACTION 1.50 Å
- Oligo State
- homo-hexamer
- Ligands
- 2 x PGE: TRIETHYLENE GLYCOL(Non-functional Binders)
- 2 x SO4: SULFATE ION(Non-functional Binders)
- 5 x NA: SODIUM ION(Non-functional Binders)
NA.3: 6 residues within 4Å:- Chain A: Y.48, F.62, K.63, H.64
- Ligands: U5P.4, U5P.8
3 PLIP interactions:3 interactions with chain A- Hydrogen bonds: A:Y.48, A:K.63, A:H.64
NA.6: 2 residues within 4Å:- Chain B: H.64
- Ligands: U5P.12
No protein-ligand interaction detected (PLIP)NA.7: 6 residues within 4Å:- Chain B: Y.48, F.62, K.63, H.64
- Ligands: U5P.8, U5P.12
3 PLIP interactions:3 interactions with chain B- Hydrogen bonds: B:K.63, B:H.64, B:H.64
NA.10: 6 residues within 4Å:- Chain C: Y.48, F.62, K.63, H.64
- Ligands: U5P.12, U5P.13
3 PLIP interactions:3 interactions with chain C- Hydrogen bonds: C:Y.48, C:K.63, C:H.64
NA.20: 6 residues within 4Å:- Chain F: Y.48, F.62, K.63, H.64
- Ligands: U5P.4, U5P.21
3 PLIP interactions:3 interactions with chain F- Hydrogen bonds: F:K.63, F:H.64, F:H.64
- 6 x U5P: URIDINE-5'-MONOPHOSPHATE(Non-covalent)
U5P.4: 11 residues within 4Å:- Chain A: E.18, N.47, Y.48, K.63
- Chain F: Y.48, F.62, H.64
- Ligands: NA.3, U5P.8, NA.20, U5P.21
6 PLIP interactions:5 interactions with chain A, 1 interactions with chain F- Hydrogen bonds: A:E.18, A:Y.48, A:Y.48, A:K.63
- pi-Stacking: A:Y.48, F:Y.48
U5P.8: 11 residues within 4Å:- Chain A: Y.48, F.62, H.64
- Chain B: N.47, Y.48, K.63
- Ligands: NA.3, U5P.4, NA.7, U5P.12, U5P.21
5 PLIP interactions:1 interactions with chain A, 4 interactions with chain B- pi-Stacking: A:Y.48
- Hydrophobic interactions: B:Y.48
- Hydrogen bonds: B:K.63
- Water bridges: B:E.18, B:N.47
U5P.12: 13 residues within 4Å:- Chain B: Y.48, F.62, H.64
- Chain C: E.18, N.47, Y.48, K.63, H.64
- Ligands: NA.6, NA.7, U5P.8, NA.10, U5P.13
5 PLIP interactions:1 interactions with chain B, 4 interactions with chain C- pi-Stacking: B:Y.48, C:Y.48
- Hydrogen bonds: C:E.18, C:K.63
- Salt bridges: C:H.64
U5P.13: 11 residues within 4Å:- Chain C: Y.48, F.62, H.64
- Chain D: E.18, N.47, Y.48, K.63, H.64
- Ligands: NA.10, U5P.12, U5P.17
7 PLIP interactions:6 interactions with chain D, 1 interactions with chain C- Hydrophobic interactions: D:Y.48
- Hydrogen bonds: D:E.18, D:K.63
- Water bridges: D:K.63, D:H.64
- Salt bridges: D:H.64
- pi-Stacking: C:Y.48
U5P.17: 11 residues within 4Å:- Chain D: Y.48, F.62, H.64
- Chain E: E.18, N.47, Y.48, F.62, K.63, H.64
- Ligands: U5P.13, U5P.21
11 PLIP interactions:10 interactions with chain E, 1 interactions with chain D- Hydrophobic interactions: E:N.47
- Hydrogen bonds: E:E.18, E:E.18, E:Y.48, E:K.63, E:K.63, E:H.64
- Water bridges: E:N.16
- Salt bridges: E:H.64
- pi-Stacking: E:Y.48, D:Y.48
U5P.21: 12 residues within 4Å:- Chain E: Y.48, F.62, H.64
- Chain F: E.18, N.47, Y.48, K.63, H.64
- Ligands: U5P.4, U5P.8, U5P.17, NA.20
5 PLIP interactions:1 interactions with chain E, 4 interactions with chain F- pi-Stacking: E:Y.48, F:Y.48
- Hydrogen bonds: F:E.18, F:E.18, F:K.63
- 1 x EDO: 1,2-ETHANEDIOL(Non-functional Binders)
- 2 x PG4: TETRAETHYLENE GLYCOL(Non-functional Binders)
PG4.9: 5 residues within 4Å:- Chain B: T.43, M.51
- Chain C: R.22, K.26, Y.71
5 PLIP interactions:3 interactions with chain C, 2 interactions with chain B- Hydrogen bonds: C:R.22, C:Y.71, B:T.43, B:T.43
- Water bridges: C:K.26
PG4.14: 6 residues within 4Å:- Chain E: K.27, V.28, K.29, D.39, E.70, Y.71
No protein-ligand interaction detected (PLIP)- 2 x CL: CHLORIDE ION(Non-functional Binders)
- 1 x PEG: DI(HYDROXYETHYL)ETHER(Non-functional Binders)
- Links
- RCSB PDBe PDBe-KB PDBj PDBsum CATH PLIP
- Citation
- Nikulin, A. et al., Characterization of RNA-binding properties of the archaeal Hfq-like protein from Methanococcus jannaschii. J. Biomol. Struct. Dyn. (2017)
- Release Date
- 2015-12-23
- Peptides
- Uncharacterized protein MJ1435: ABCDEF
- SMTL:PDB
- SMTL Chain Id:
PDB Chain Id:A
AB
BC
CD
DE
EF
F
- Coordinates
- PDB Format
- Method
- X-RAY DIFFRACTION 1.50 Å
- Oligo State
- homo-hexamer
- Ligands
- 2 x PGE: TRIETHYLENE GLYCOL(Non-functional Binders)
- 2 x SO4: SULFATE ION(Non-functional Binders)
- 5 x NA: SODIUM ION(Non-functional Binders)
- 6 x U5P: URIDINE-5'-MONOPHOSPHATE(Non-covalent)
- 1 x EDO: 1,2-ETHANEDIOL(Non-functional Binders)
- 2 x PG4: TETRAETHYLENE GLYCOL(Non-functional Binders)
- 2 x CL: CHLORIDE ION(Non-functional Binders)
- 1 x PEG: DI(HYDROXYETHYL)ETHER(Non-functional Binders)
- Links
- RCSB PDBe PDBe-KB PDBj PDBsum CATH PLIP
- Citation
- Nikulin, A. et al., Characterization of RNA-binding properties of the archaeal Hfq-like protein from Methanococcus jannaschii. J. Biomol. Struct. Dyn. (2017)
- Release Date
- 2015-12-23
- Peptides
- Uncharacterized protein MJ1435: ABCDEF
- SMTL:PDB
- SMTL Chain Id:
PDB Chain Id:A
AB
BC
CD
DE
EF
F