- Coordinates
- PDB Format
- Method
- X-RAY DIFFRACTION 2.70 Å
- Oligo State
- monomer
- Ligands
- 1 x F6L: 4-[[2-[(E)-2-[4-[(2S,3R,4S,5R,6R)-6-(hydroxymethyl)-3,4,5-tris(oxidanyl)oxan-2-yl]oxyphenyl]ethenyl]-3,3-dimethyl-2H-indol-1-yl]methyl]benzoic acid(Non-covalent)
- 2 x MG: MAGNESIUM ION(Non-covalent)
MG.2: 5 residues within 4Å:- Chain A: D.203, E.418, H.420, E.463
- Ligands: F6L.1
5 PLIP interactions:3 interactions with chain A, 2 Ligand-Water interactions- Metal complexes: A:E.418, A:H.420, A:E.463, H2O.3, H2O.8
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)
- 12 x DMS: DIMETHYL SULFOXIDE(Non-functional Binders)
DMS.6: 4 residues within 4Å:- Chain A: S.55, L.56, N.57, L.127
No protein-ligand interaction detected (PLIP)DMS.7: 4 residues within 4Å:- Chain A: G.272, T.273, L.293, R.294
1 PLIP interactions:1 interactions with chain A- Hydrogen bonds: A:R.294
DMS.8: 5 residues within 4Å:- Chain A: K.382, N.385, F.628, Y.644, W.710
1 PLIP interactions:1 interactions with chain A- Hydrogen bonds: A:Y.644
DMS.9: 3 residues within 4Å:- Chain A: 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.10: 7 residues within 4Å:- Chain A: V.229, T.231, V.332, G.333, R.450, N.451, R.484
2 PLIP interactions:2 interactions with chain A- Hydrogen bonds: A:R.484
- Water bridges: A:R.335
DMS.11: 3 residues within 4Å:- Chain A: K.623, R.701, W.719
1 PLIP interactions:1 interactions with chain A- Hydrogen bonds: A:K.623
DMS.12: 4 residues within 4Å:- Chain A: G.277, V.291, T.292, R.294
2 PLIP interactions:2 interactions with chain A- Hydrogen bonds: A:T.292
- Water bridges: A:E.279
DMS.13: 6 residues within 4Å:- Chain A: R.559, H.624, Q.625, Q.627, Q.630, Q.720
2 PLIP interactions:2 interactions with chain A- Hydrogen bonds: A:Q.630
- pi-Cation interactions: A:H.624
DMS.14: 6 residues within 4Å:- Chain A: P.34, F.35, A.36, W.38, A.329
- Ligands: DMS.16
1 PLIP interactions:1 interactions with chain A- Salt bridges: A:D.47
DMS.15: 3 residues within 4Å:- Chain A: H.95, G.96, Y.97
1 PLIP interactions:1 interactions with chain A- pi-Cation interactions: A:Y.97
DMS.16: 3 residues within 4Å:- Chain A: D.47, R.48
- Ligands: DMS.14
1 PLIP interactions:1 interactions with chain A- Salt bridges: A:D.47
DMS.17: 5 residues within 4Å:- Chain A: F.991, A.1013, R.1015, Y.1016, H.1017
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
A
- Coordinates
- PDB Format
- Method
- X-RAY DIFFRACTION 2.70 Å
- Oligo State
- monomer
- Ligands
- 1 x F6L: 4-[[2-[(E)-2-[4-[(2S,3R,4S,5R,6R)-6-(hydroxymethyl)-3,4,5-tris(oxidanyl)oxan-2-yl]oxyphenyl]ethenyl]-3,3-dimethyl-2H-indol-1-yl]methyl]benzoic acid(Non-covalent)
- 2 x MG: MAGNESIUM ION(Non-covalent)
- 2 x NA: SODIUM ION(Non-functional Binders)
- 12 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
A