- Coordinates
- PDB Format
- Method
- X-RAY DIFFRACTION 1.80 Å
- Oligo State
- homo-hexamer
- Ligands
- 6 x CTP: CYTIDINE-5'-TRIPHOSPHATE(Non-covalent)
- 4 x C: CYTIDINE-5'-MONOPHOSPHATE(Non-covalent)
C.2: 13 residues within 4Å:- Chain A: H.5, Q.8, Q.41, F.42, K.56, H.57
- Chain E: F.42, Y.55, H.57
- Ligands: CTP.5, C.16, MG.19, MG.20
Protein-ligand interaction information (PLIP) not availableC.8: 14 residues within 4Å:- Chain C: H.5, Q.8, Q.41, F.42, K.56
- Chain F: F.42, Y.55, H.57
- Ligands: MG.9, MG.10, C.16, MG.19, CDP.21, NA.25
Protein-ligand interaction information (PLIP) not availableC.11: 16 residues within 4Å:- Chain B: F.42, Y.55, H.57
- Chain D: H.5, Q.8, Q.41, F.42, K.56, H.57
- Ligands: CTP.5, MG.6, MG.10, MG.14, MG.15, CDP.21, NA.25
Protein-ligand interaction information (PLIP) not availableC.16: 15 residues within 4Å:- Chain C: F.42, Y.55, H.57
- Chain E: G.4, Q.8, Q.41, F.42, K.56, H.57
- Ligands: C.2, CTP.5, C.8, MG.9, MG.19, MG.20
10 PLIP interactions:3 interactions with chain C, 7 interactions with chain E- Hydrogen bonds: C:H.57, E:G.4, E:G.4, E:Q.8, E:K.56
- Water bridges: C:H.57, E:H.57
- pi-Stacking: C:F.42
- Hydrophobic interactions: E:F.42
- Salt bridges: E:H.57
- 8 x MG: MAGNESIUM ION(Non-covalent)(Non-functional Binders)
MG.3: 4 residues within 4Å:- Chain A: D.9, F.39, D.40, K.56
1 PLIP interactions:1 interactions with chain A- Metal complexes: A:D.40
MG.6: 2 residues within 4Å:- Ligands: CTP.5, C.11
No protein-ligand interaction detected (PLIP)MG.9: 6 residues within 4Å:- Chain C: H.57
- Ligands: CTP.5, C.8, MG.10, C.16, CDP.21
No protein-ligand interaction detected (PLIP)MG.10: 6 residues within 4Å:- Ligands: CTP.5, C.8, MG.9, C.11, CDP.21, NA.25
No protein-ligand interaction detected (PLIP)MG.14: 6 residues within 4Å:- Chain D: F.42, Y.55, K.56, H.57
- Ligands: C.11, CDP.21
1 PLIP interactions:1 interactions with chain D- Metal complexes: D:F.42
MG.15: 3 residues within 4Å:- Ligands: CTP.5, C.11, CDP.21
No protein-ligand interaction detected (PLIP)MG.19: 4 residues within 4Å:- Chain E: F.42
- Ligands: C.2, C.8, C.16
No protein-ligand interaction detected (PLIP)MG.20: 5 residues within 4Å:- Chain A: H.57
- Chain E: H.57
- Ligands: C.2, CTP.5, C.16
No protein-ligand interaction detected (PLIP)- 3 x NA: SODIUM ION(Non-functional Binders)
NA.4: 1 residues within 4Å:- Ligands: P6G.13
No protein-ligand interaction detected (PLIP)NA.24: 5 residues within 4Å:- Chain F: T.14, E.18, R.66, V.68, R.69
2 PLIP interactions:2 interactions with chain F- Hydrogen bonds: F:R.66, F:R.69
NA.25: 4 residues within 4Å:- Ligands: C.8, MG.10, C.11, CDP.21
No protein-ligand interaction detected (PLIP)- 1 x P6G: HEXAETHYLENE GLYCOL(Non-functional Binders)
- 2 x CL: CHLORIDE ION(Non-functional Binders)
- 1 x CDP: CYTIDINE-5'-DIPHOSPHATE(Non-covalent)
CDP.21: 18 residues within 4Å:- Chain C: H.57
- Chain D: F.42, Y.55, H.57
- Chain F: G.4, Q.8, Q.41, F.42, K.56, H.57
- Ligands: CTP.5, C.8, MG.9, MG.10, C.11, MG.14, MG.15, NA.25
12 PLIP interactions:3 interactions with chain D, 9 interactions with chain F- Hydrogen bonds: D:H.57, F:G.4, F:G.4, F:Q.8, F:K.56
- Water bridges: D:H.57, F:H.57, F:H.57
- pi-Stacking: D:F.42
- Hydrophobic interactions: F:F.42
- Salt bridges: F:H.57, F:H.57
- Links
- RCSB PDBe PDBe-KB PDBj PDBsum CATH PLIP
- Citation
- Murina, V. et al., Hfq binds ribonucleotides in three different RNA-binding sites. Acta Crystallogr.,Sect.D (2013)
- Release Date
- 2013-07-31
- Peptides
- Protein hfq: ABCDEF
- SMTL:PDB
- SMTL Chain Id:
PDB Chain Id:A
AB
BC
CD
DE
EF
F
- Coordinates
- PDB Format
- Method
- X-RAY DIFFRACTION 1.80 Å
- Oligo State
- homo-hexamer
- Ligands
- 6 x CTP: CYTIDINE-5'-TRIPHOSPHATE(Non-covalent)
- 4 x C: CYTIDINE-5'-MONOPHOSPHATE(Non-covalent)
- 8 x MG: MAGNESIUM ION(Non-covalent)(Non-functional Binders)
- 3 x NA: SODIUM ION(Non-functional Binders)
- 1 x P6G: HEXAETHYLENE GLYCOL(Non-functional Binders)
- 2 x CL: CHLORIDE ION(Non-functional Binders)
- 1 x CDP: CYTIDINE-5'-DIPHOSPHATE(Non-covalent)
- Links
- RCSB PDBe PDBe-KB PDBj PDBsum CATH PLIP
- Citation
- Murina, V. et al., Hfq binds ribonucleotides in three different RNA-binding sites. Acta Crystallogr.,Sect.D (2013)
- Release Date
- 2013-07-31
- Peptides
- Protein hfq: ABCDEF
- SMTL:PDB
- SMTL Chain Id:
PDB Chain Id:A
AB
BC
CD
DE
EF
F