- Coordinates
- PDB Format
- Method
- X-RAY DIFFRACTION 2.45 Å
- Oligo State
- monomer
- Ligands
- 1 x GLA: alpha-D-galactopyranose(Non-covalent)
- 2 x PEG: DI(HYDROXYETHYL)ETHER(Non-functional Binders)
PEG.2: 5 residues within 4Å:- Chain A: F.20, A.22, L.344, F.358, F.417
No protein-ligand interaction detected (PLIP)PEG.3: 11 residues within 4Å:- Chain A: A.357, F.358, G.359, P.360, L.362, G.617, L.619, T.632, P.633, I.634, F.635
5 PLIP interactions:5 interactions with chain A- Hydrogen bonds: A:L.362, A:L.619, A:T.632, A:I.634, A:F.635
- 11 x EDO: 1,2-ETHANEDIOL(Non-functional Binders)
EDO.4: 6 residues within 4Å:- Chain A: P.350, N.351, A.352, P.353, K.623
- Ligands: EDO.12
1 PLIP interactions:1 interactions with chain A- Hydrogen bonds: A:P.350
EDO.5: 6 residues within 4Å:- Chain A: G.94, G.95, R.96, D.514, S.515, N.516
4 PLIP interactions:4 interactions with chain A- Hydrogen bonds: A:D.514, A:N.516, A:N.516
- Water bridges: A:S.515
EDO.6: 1 residues within 4Å:- Ligands: EDO.13
No protein-ligand interaction detected (PLIP)EDO.7: 4 residues within 4Å:- Chain A: V.341, A.342, K.345
- Ligands: CA.34
1 PLIP interactions:1 interactions with chain A- Hydrogen bonds: A:K.345
EDO.8: 1 residues within 4Å:- Chain A: K.25
No protein-ligand interaction detected (PLIP)EDO.9: 2 residues within 4Å:- Chain A: K.300, Q.302
No protein-ligand interaction detected (PLIP)EDO.10: 0 residues within 4Å:- (No contacts)
No protein-ligand interaction detected (PLIP)EDO.11: 0 residues within 4Å:- (No contacts)
No protein-ligand interaction detected (PLIP)EDO.12: 6 residues within 4Å:- Chain A: P.353, N.622, K.623, R.624, K.655
- Ligands: EDO.4
3 PLIP interactions:3 interactions with chain A- Hydrogen bonds: A:P.353, A:N.622, A:K.655
EDO.13: 5 residues within 4Å:- Chain A: V.84, W.650, A.652, A.653
- Ligands: EDO.6
2 PLIP interactions:2 interactions with chain A- Hydrogen bonds: A:A.653
- Water bridges: A:D.654
EDO.14: 6 residues within 4Å:- Chain A: E.23, G.24, K.25, I.26, Y.28, P.360
3 PLIP interactions:3 interactions with chain A- Hydrogen bonds: A:E.23, A:K.25, A:I.26
- 9 x CL: CHLORIDE ION(Non-functional Binders)
CL.15: 2 residues within 4Å:- Chain A: W.48, N.308
Ligand excluded by PLIPCL.16: 3 residues within 4Å:- Chain A: K.74, G.76, E.299
Ligand excluded by PLIPCL.17: 6 residues within 4Å:- Chain A: R.96, P.97, Y.280, P.282, D.283, L.314
Ligand excluded by PLIPCL.18: 5 residues within 4Å:- Chain A: L.117, S.118, E.119, P.237, M.272
Ligand excluded by PLIPCL.19: 2 residues within 4Å:- Chain A: P.245, Q.246
Ligand excluded by PLIPCL.20: 6 residues within 4Å:- Chain A: R.123, E.641, D.642, I.645, R.646, E.647
Ligand excluded by PLIPCL.21: 3 residues within 4Å:- Chain A: G.415, P.416
- Ligands: CA.31
Ligand excluded by PLIPCL.22: 2 residues within 4Å:- Chain A: P.41, S.42
Ligand excluded by PLIPCL.23: 1 residues within 4Å:- Chain A: S.430
Ligand excluded by PLIP- 12 x CA: CALCIUM ION(Non-covalent)(Non-functional Binders)
CA.24: 6 residues within 4Å:- Chain A: D.80, R.355, F.625, S.626, N.627, V.628
1 PLIP interactions:1 interactions with chain A- Metal complexes: A:F.625
CA.25: 2 residues within 4Å:- Chain A: P.79, V.628
1 PLIP interactions:1 interactions with chain A- Metal complexes: A:V.628
CA.26: 3 residues within 4Å:- Chain A: T.135, K.224, Y.228
No protein-ligand interaction detected (PLIP)CA.27: 1 residues within 4Å:- Chain A: P.571
No protein-ligand interaction detected (PLIP)CA.28: 7 residues within 4Å:- Chain A: T.400, L.403, R.405, Y.439, Y.440, P.441, F.442
1 PLIP interactions:1 interactions with chain A- Metal complexes: A:L.403
CA.29: 2 residues within 4Å:- Chain A: D.47, E.51
No protein-ligand interaction detected (PLIP)CA.30: 2 residues within 4Å:- Chain A: R.554, S.561
1 PLIP interactions:1 interactions with chain A- Metal complexes: A:S.561
CA.31: 2 residues within 4Å:- Chain A: P.416
- Ligands: CL.21
No protein-ligand interaction detected (PLIP)CA.32: 1 residues within 4Å:- Ligands: GLA.1
No protein-ligand interaction detected (PLIP)CA.33: 0 residues within 4Å:- (No contacts)
No protein-ligand interaction detected (PLIP)CA.34: 1 residues within 4Å:- Ligands: EDO.7
No protein-ligand interaction detected (PLIP)CA.35: 7 residues within 4Å:- Chain A: D.458, T.459, D.460, D.462, F.464, N.466, N.476
4 PLIP interactions:4 interactions with chain A- Metal complexes: A:D.458, A:D.460, A:D.462, A:F.464
- Links
- RCSB PDBe PDBe-KB PDBj PDBsum CATH PLIP
- Citation
- Meyer, T. et al., The plant defense signal galactinol is specifically used as a nutrient by the bacterial pathogenAgrobacterium fabrum. J. Biol. Chem. (2018)
- Release Date
- 2018-04-11
- Peptides
- Periplasmic alpha-galactoside-binding protein: A
- SMTL:PDB
- SMTL Chain Id:
PDB Chain Id:A
A
- Coordinates
- PDB Format
- Method
- X-RAY DIFFRACTION 2.45 Å
- Oligo State
- monomer
- Ligands
- 1 x GLA: alpha-D-galactopyranose(Non-covalent)
- 2 x PEG: DI(HYDROXYETHYL)ETHER(Non-functional Binders)
- 11 x EDO: 1,2-ETHANEDIOL(Non-functional Binders)
- 9 x CL: CHLORIDE ION(Non-functional Binders)
- 12 x CA: CALCIUM ION(Non-covalent)(Non-functional Binders)
- Links
- RCSB PDBe PDBe-KB PDBj PDBsum CATH PLIP
- Citation
- Meyer, T. et al., The plant defense signal galactinol is specifically used as a nutrient by the bacterial pathogenAgrobacterium fabrum. J. Biol. Chem. (2018)
- Release Date
- 2018-04-11
- Peptides
- Periplasmic alpha-galactoside-binding protein: A
- SMTL:PDB
- SMTL Chain Id:
PDB Chain Id:A
A