- Coordinates
- PDB Format
- Method
- X-RAY DIFFRACTION 2.41 Å
- Oligo State
- hetero-3-3-mer
- Ligands
- 3 x CDP: CYTIDINE-5'-DIPHOSPHATE(Non-covalent)
- 15 x MPD: (4S)-2-METHYL-2,4-PENTANEDIOL(Non-functional Binders)
MPD.2: 6 residues within 4Å:- Chain A: D.180, N.181, G.183, A.185, G.205
- Chain D: E.119
2 PLIP interactions:2 interactions with chain A- Hydrogen bonds: A:G.183
- Water bridges: A:G.183
MPD.3: 8 residues within 4Å:- Chain A: E.32, V.35, L.36, Y.44, I.53
- Chain B: L.54, K.56, Q.61
6 PLIP interactions:3 interactions with chain A, 3 interactions with chain B- Hydrophobic interactions: A:L.36, A:Y.44, A:I.53, B:L.54
- Hydrogen bonds: B:K.56, B:K.56
MPD.4: 7 residues within 4Å:- Chain B: L.165, V.192, E.193, K.194, I.195, E.230, L.269
5 PLIP interactions:5 interactions with chain B- Hydrophobic interactions: B:L.165, B:I.195, B:I.195
- Hydrogen bonds: B:E.230, B:E.230
MPD.5: 1 residues within 4Å:- Chain B: K.259
No protein-ligand interaction detected (PLIP)MPD.6: 6 residues within 4Å:- Chain B: F.33, N.206, I.207, L.208, E.249, Y.252
3 PLIP interactions:3 interactions with chain B- Hydrophobic interactions: B:L.208, B:E.249
- Hydrogen bonds: B:L.208
MPD.8: 6 residues within 4Å:- Chain C: D.180, N.181, G.183, A.185, G.205
- Chain F: E.119
2 PLIP interactions:2 interactions with chain C- Hydrogen bonds: C:G.183
- Water bridges: C:G.183
MPD.9: 8 residues within 4Å:- Chain C: E.32, V.35, L.36, Y.44, I.53
- Chain D: L.54, K.56, Q.61
6 PLIP interactions:3 interactions with chain C, 3 interactions with chain D- Hydrophobic interactions: C:L.36, C:Y.44, C:I.53, D:L.54
- Hydrogen bonds: D:K.56, D:K.56
MPD.10: 7 residues within 4Å:- Chain D: L.165, V.192, E.193, K.194, I.195, E.230, L.269
5 PLIP interactions:5 interactions with chain D- Hydrophobic interactions: D:L.165, D:I.195, D:I.195
- Hydrogen bonds: D:E.230, D:E.230
MPD.11: 1 residues within 4Å:- Chain D: K.259
No protein-ligand interaction detected (PLIP)MPD.12: 6 residues within 4Å:- Chain D: F.33, N.206, I.207, L.208, E.249, Y.252
3 PLIP interactions:3 interactions with chain D- Hydrophobic interactions: D:L.208, D:E.249
- Hydrogen bonds: D:L.208
MPD.14: 6 residues within 4Å:- Chain B: E.119
- Chain E: D.180, N.181, G.183, A.185, G.205
2 PLIP interactions:2 interactions with chain E- Hydrogen bonds: E:G.183
- Water bridges: E:G.183
MPD.15: 8 residues within 4Å:- Chain E: E.32, V.35, L.36, Y.44, I.53
- Chain F: L.54, K.56, Q.61
6 PLIP interactions:3 interactions with chain F, 3 interactions with chain E- Hydrophobic interactions: F:L.54, E:L.36, E:Y.44, E:I.53
- Hydrogen bonds: F:K.56, F:K.56
MPD.16: 7 residues within 4Å:- Chain F: L.165, V.192, E.193, K.194, I.195, E.230, L.269
5 PLIP interactions:5 interactions with chain F- Hydrophobic interactions: F:L.165, F:I.195, F:I.195
- Hydrogen bonds: F:E.230, F:E.230
MPD.17: 1 residues within 4Å:- Chain F: K.259
No protein-ligand interaction detected (PLIP)MPD.18: 6 residues within 4Å:- Chain F: F.33, N.206, I.207, L.208, E.249, Y.252
3 PLIP interactions:3 interactions with chain F- Hydrophobic interactions: F:L.208, F:E.249
- Hydrogen bonds: F:L.208
- Links
- RCSB PDBe PDBe-KB PDBj PDBsum CATH PLIP
- Citation
- Navarro, M.V.A.S. et al., Insights into the mechanism of progressive RNA degradation by the archaeal exosome. J.Biol.Chem. (2008)
- Release Date
- 2008-03-18
- Peptides
- Probable exosome complex exonuclease 1: ACE
Probable exosome complex exonuclease 2: BDF - SMTL:PDB
- SMTL Chain Id:
PDB Chain Id:A
AC
AE
AB
BD
BF
B
- Coordinates
- PDB Format
- Method
- X-RAY DIFFRACTION 2.41 Å
- Oligo State
- hetero-3-3-mer
- Ligands
- 3 x CDP: CYTIDINE-5'-DIPHOSPHATE(Non-covalent)
- 15 x MPD: (4S)-2-METHYL-2,4-PENTANEDIOL(Non-functional Binders)
- Links
- RCSB PDBe PDBe-KB PDBj PDBsum CATH PLIP
- Citation
- Navarro, M.V.A.S. et al., Insights into the mechanism of progressive RNA degradation by the archaeal exosome. J.Biol.Chem. (2008)
- Release Date
- 2008-03-18
- Peptides
- Probable exosome complex exonuclease 1: ACE
Probable exosome complex exonuclease 2: BDF - SMTL:PDB
- SMTL Chain Id:
PDB Chain Id:A
AC
AE
AB
BD
BF
B