- Coordinates
- PDB Format
- Method
- X-RAY DIFFRACTION 1.60 Å
- Oligo State
- homo-tetramer
- Ligands
- 4 x TRS: 2-AMINO-2-HYDROXYMETHYL-PROPANE-1,3-DIOL(Non-functional Binders)
- 6 x GOL: GLYCEROL(Non-functional Binders)
GOL.2: 6 residues within 4Å:- Chain A: C.281, N.286, M.287, Y.288
- Chain B: F.144
- Ligands: TRS.1
2 PLIP interactions:2 interactions with chain A- Hydrogen bonds: A:N.286
- Water bridges: A:M.287
GOL.4: 3 residues within 4Å:- Chain A: E.97, M.100, K.101
No protein-ligand interaction detected (PLIP)GOL.6: 7 residues within 4Å:- Chain A: H.145, P.173, Q.174, G.177
- Chain B: H.145, Q.174, G.177
1 PLIP interactions:1 interactions with chain B- Hydrogen bonds: B:Q.174
GOL.9: 6 residues within 4Å:- Chain A: F.144
- Chain B: C.281, N.286, M.287, Y.288
- Ligands: TRS.8
4 PLIP interactions:4 interactions with chain B- Hydrogen bonds: B:N.286
- Water bridges: B:M.287, B:Y.288, B:Y.288
GOL.12: 4 residues within 4Å:- Chain C: N.286, Y.288
- Chain D: F.144
- Ligands: MG.13
3 PLIP interactions:2 interactions with chain C, 1 interactions with chain D- Hydrogen bonds: C:N.286
- Water bridges: C:M.287, D:H.145
GOL.15: 4 residues within 4Å:- Chain C: F.144
- Chain D: N.286, Y.288
- Ligands: TRS.14
2 PLIP interactions:2 interactions with chain D- Hydrogen bonds: D:N.286
- Water bridges: D:M.287
- 3 x PEG: DI(HYDROXYETHYL)ETHER(Non-functional Binders)
PEG.3: 5 residues within 4Å:- Chain A: R.267, Y.271
- Chain C: K.211, G.235, E.237
1 PLIP interactions:1 interactions with chain A- Water bridges: A:R.267
PEG.16: 3 residues within 4Å:- Chain D: E.104, G.105, K.106
2 PLIP interactions:2 interactions with chain D- Hydrogen bonds: D:K.106
- Water bridges: D:K.106
PEG.17: 5 residues within 4Å:- Chain B: K.211, G.235, E.237
- Chain D: R.267, Y.271
2 PLIP interactions:1 interactions with chain D, 1 interactions with chain B- Water bridges: D:R.267
- Hydrogen bonds: B:G.235
- 1 x BCN: BICINE(Non-covalent)
- 4 x MG: MAGNESIUM ION(Non-covalent)
MG.7: 3 residues within 4Å:- Chain A: N.286, P.311
- Chain B: P.147
No protein-ligand interaction detected (PLIP)MG.10: 3 residues within 4Å:- Chain A: P.147
- Chain B: N.286, P.311
No protein-ligand interaction detected (PLIP)MG.13: 4 residues within 4Å:- Chain C: N.286, P.311
- Chain D: P.147
- Ligands: GOL.12
No protein-ligand interaction detected (PLIP)MG.18: 3 residues within 4Å:- Chain C: P.147
- Chain D: N.286, P.311
No protein-ligand interaction detected (PLIP)- Links
- RCSB PDBe PDBe-KB PDBj PDBsum CATH PLIP
- Citation
- Bell, A. et al., Elucidation of a sialic acid metabolism pathway in mucus-foraging Ruminococcus gnavus unravels mechanisms of bacterial adaptation to the gut. Nat Microbiol (2019)
- Release Date
- 2019-09-25
- Peptides
- Putative N-acetylneuraminate lyase: ABCD
- SMTL:PDB
- SMTL Chain Id:
PDB Chain Id:A
AB
BC
ED
F
- Coordinates
- PDB Format
- Method
- X-RAY DIFFRACTION 1.60 Å
- Oligo State
- homo-tetramer
- Ligands
- 4 x TRS: 2-AMINO-2-HYDROXYMETHYL-PROPANE-1,3-DIOL(Non-functional Binders)
- 6 x GOL: GLYCEROL(Non-functional Binders)
- 3 x PEG: DI(HYDROXYETHYL)ETHER(Non-functional Binders)
- 1 x BCN: BICINE(Non-covalent)
- 4 x MG: MAGNESIUM ION(Non-covalent)
- Links
- RCSB PDBe PDBe-KB PDBj PDBsum CATH PLIP
- Citation
- Bell, A. et al., Elucidation of a sialic acid metabolism pathway in mucus-foraging Ruminococcus gnavus unravels mechanisms of bacterial adaptation to the gut. Nat Microbiol (2019)
- Release Date
- 2019-09-25
- Peptides
- Putative N-acetylneuraminate lyase: ABCD
- SMTL:PDB
- SMTL Chain Id:
PDB Chain Id:A
AB
BC
ED
F