- Coordinates
- PDB Format
- Method
- X-RAY DIFFRACTION 2.67 Å
- Oligo State
- monomer
- Ligands
- 1 x F4X: 8-[2-[(E)-2-[4-[(2S,3R,4S,5R,6R)-6-(hydroxymethyl)-3,4,5-tris(oxidanyl)oxan-2-yl]oxyphenyl]ethenyl]-3,3-dimethyl-indol-1-ium-1-yl]octanoic acid(Non-covalent)
- 2 x MG: MAGNESIUM ION(Non-covalent)
MG.2: 4 residues within 4Å:- Chain A: N.104, E.418, H.420, E.463
6 PLIP interactions:3 interactions with chain A, 3 Ligand-Water interactions- Metal complexes: A:E.418, A:H.420, A:E.463, H2O.2, H2O.2, H2O.3
MG.3: 7 residues within 4Å:- Chain A: D.17, W.18, N.20, V.23, Y.163, Q.165, D.195
4 PLIP interactions:4 interactions with chain A- Metal complexes: A:D.17, A:N.20, A:V.23, A:D.195
- 2 x NA: SODIUM ION(Non-functional Binders)
NA.4: 6 residues within 4Å:- Chain A: Y.102, D.203, W.570, F.603, N.606
- Ligands: F4X.1
2 PLIP interactions:2 interactions with chain A- Hydrogen bonds: A:F.603, A:N.606
NA.5: 5 residues within 4Å:- Chain A: F.933, P.934, L.969, M.970, T.972
1 PLIP interactions:1 interactions with chain A- Hydrogen bonds: A:T.972
- 10 x DMS: DIMETHYL SULFOXIDE(Non-functional Binders)
DMS.6: 5 residues within 4Å:- Chain A: S.55, L.56, N.57, L.127, F.129
No protein-ligand interaction detected (PLIP)DMS.7: 5 residues within 4Å:- Chain A: I.578, P.586, W.587, S.588, R.975
1 PLIP interactions:1 interactions with chain A- Hydrogen bonds: A:R.975
DMS.8: 4 residues within 4Å:- Chain A: T.85, V.86, V.87, H.95
2 PLIP interactions:2 interactions with chain A- Hydrogen bonds: A:V.87
- pi-Cation interactions: A:H.95
DMS.9: 5 residues within 4Å:- Chain A: N.104, D.600, F.603, V.797
- Ligands: F4X.1
3 PLIP interactions:3 interactions with chain A- Hydrogen bonds: A:N.104
- Salt bridges: A:D.600
- pi-Cation interactions: A:F.603
DMS.10: 5 residues within 4Å:- Chain A: G.272, T.292, L.293, R.294, L.295
No protein-ligand interaction detected (PLIP)DMS.11: 5 residues within 4Å:- Chain A: P.34, W.38, D.47, R.312, A.329
2 PLIP interactions:2 interactions with chain A- Water bridges: A:A.36
- Salt bridges: A:D.47
DMS.12: 8 residues within 4Å:- Chain A: W.38, R.39, N.40, E.43, P.49, S.50, Q.51, Q.52
3 PLIP interactions:3 interactions with chain A- Hydrogen bonds: A:R.39, A:Q.51, A:Q.52
DMS.13: 5 residues within 4Å:- Chain A: Y.474, T.496, T.498, D.499, R.533
No protein-ligand interaction detected (PLIP)DMS.14: 4 residues within 4Å:- Chain A: I.795, S.798, A.800, E.810
1 PLIP interactions:1 interactions with chain A- Salt bridges: A:E.810
DMS.15: 8 residues within 4Å:- Chain A: V.229, T.231, V.332, G.333, R.450, N.451, P.453, R.484
No protein-ligand interaction detected (PLIP)- Links
- RCSB PDBe PDBe-KB PDBj PDBsum CATH PLIP
- Citation
- Gao, Y. et al., Two-Dimensional Design Strategy to Construct Smart Fluorescent Probes for the Precise Tracking of Senescence. Angew.Chem.Int.Ed.Engl. (2021)
- Release Date
- 2021-03-03
- Peptides
- Beta-galactosidase: A
- SMTL:PDB
- SMTL Chain Id:
PDB Chain Id:A
B
- Coordinates
- PDB Format
- Method
- X-RAY DIFFRACTION 2.67 Å
- Oligo State
- monomer
- Ligands
- 1 x F4X: 8-[2-[(E)-2-[4-[(2S,3R,4S,5R,6R)-6-(hydroxymethyl)-3,4,5-tris(oxidanyl)oxan-2-yl]oxyphenyl]ethenyl]-3,3-dimethyl-indol-1-ium-1-yl]octanoic acid(Non-covalent)
- 2 x MG: MAGNESIUM ION(Non-covalent)
- 2 x NA: SODIUM ION(Non-functional Binders)
- 10 x DMS: DIMETHYL SULFOXIDE(Non-functional Binders)
- Links
- RCSB PDBe PDBe-KB PDBj PDBsum CATH PLIP
- Citation
- Gao, Y. et al., Two-Dimensional Design Strategy to Construct Smart Fluorescent Probes for the Precise Tracking of Senescence. Angew.Chem.Int.Ed.Engl. (2021)
- Release Date
- 2021-03-03
- Peptides
- Beta-galactosidase: A
- SMTL:PDB
- SMTL Chain Id:
PDB Chain Id:A
B