- Coordinates
- PDB Format
- Method
- X-RAY DIFFRACTION 1.35 Å
- Oligo State
- homo-trimer
- Ligands
- 3 x NDG- GLA- NAG- GLC- GLC- RAM- NAG: alpha-D-glucopyranose-(1-6)-2-acetamido-2-deoxy-beta-D-glucopyranose-(1-3)-[alpha-L-rhamnopyranose-(1-6)-alpha-D-glucopyranose-(1-4)][2-acetamido-2-deoxy-beta-D-glucopyranose-(1-3)]alpha-D-galactopyranose-(1-3)-2-acetamido-2-deoxy-alpha-D-glucopyranose
- 9 x NA: SODIUM ION(Non-functional Binders)
NA.2: 3 residues within 4Å:- Chain A: D.230
- Ligands: NDG-GLA-NAG-GLC-GLC-RAM-NAG.1, NDG-GLA-NAG-GLC-GLC-RAM-NAG.1
2 PLIP interactions:2 interactions with chain A- Hydrogen bonds: A:D.230
- Water bridges: A:D.230
NA.3: 8 residues within 4Å:- Chain A: D.230, H.231, S.232, I.258, C.260, Q.263
- Ligands: NDG-GLA-NAG-GLC-GLC-RAM-NAG.1, NDG-GLA-NAG-GLC-GLC-RAM-NAG.1
4 PLIP interactions:4 interactions with chain A- Hydrogen bonds: A:Q.263
- Water bridges: A:R.281, A:Y.284, A:Y.284
NA.4: 2 residues within 4Å:- Chain A: G.102
- Ligands: NDG-GLA-NAG-GLC-GLC-RAM-NAG.1
No protein-ligand interaction detected (PLIP)NA.7: 3 residues within 4Å:- Chain B: D.230
- Ligands: NDG-GLA-NAG-GLC-GLC-RAM-NAG.6, NDG-GLA-NAG-GLC-GLC-RAM-NAG.6
2 PLIP interactions:2 interactions with chain B- Hydrogen bonds: B:D.230
- Water bridges: B:D.230
NA.8: 8 residues within 4Å:- Chain B: D.230, H.231, S.232, I.258, C.260, Q.263
- Ligands: NDG-GLA-NAG-GLC-GLC-RAM-NAG.6, NDG-GLA-NAG-GLC-GLC-RAM-NAG.6
4 PLIP interactions:4 interactions with chain B- Hydrogen bonds: B:D.230
- Water bridges: B:R.281, B:Y.284, B:Y.284
NA.9: 2 residues within 4Å:- Chain B: G.102
- Ligands: NDG-GLA-NAG-GLC-GLC-RAM-NAG.6
1 PLIP interactions:1 interactions with chain B- Hydrogen bonds: B:G.102
NA.12: 3 residues within 4Å:- Chain C: D.230
- Ligands: NDG-GLA-NAG-GLC-GLC-RAM-NAG.11, NDG-GLA-NAG-GLC-GLC-RAM-NAG.11
2 PLIP interactions:2 interactions with chain C- Water bridges: C:D.230, C:D.230
NA.13: 8 residues within 4Å:- Chain C: D.230, H.231, S.232, I.258, C.260, Q.263
- Ligands: NDG-GLA-NAG-GLC-GLC-RAM-NAG.11, NDG-GLA-NAG-GLC-GLC-RAM-NAG.11
4 PLIP interactions:4 interactions with chain C- Hydrogen bonds: C:D.230
- Water bridges: C:R.281, C:Y.284, C:Y.284
NA.14: 2 residues within 4Å:- Chain C: G.102
- Ligands: NDG-GLA-NAG-GLC-GLC-RAM-NAG.11
1 PLIP interactions:1 interactions with chain C- Hydrogen bonds: C:G.102
- 3 x TRS: 2-AMINO-2-HYDROXYMETHYL-PROPANE-1,3-DIOL(Non-functional Binders)
TRS.5: 3 residues within 4Å:- Chain A: V.459, N.460, Y.488
3 PLIP interactions:1 interactions with chain A, 2 interactions with chain B- Hydrogen bonds: A:N.460
- Water bridges: B:E.470, B:E.470
TRS.10: 3 residues within 4Å:- Chain B: V.459, N.460, Y.488
3 PLIP interactions:1 interactions with chain B, 2 interactions with chain C- Hydrogen bonds: B:N.460
- Water bridges: C:E.470, C:E.470
TRS.15: 3 residues within 4Å:- Chain C: V.459, N.460, Y.488
3 PLIP interactions:2 interactions with chain A, 1 interactions with chain C- Water bridges: A:E.470, A:E.470
- Hydrogen bonds: C:N.460
- Links
- RCSB PDBe PDBe-KB PDBj PDBsum CATH PLIP
- Citation
- Broeker, N.K. et al., Single Amino Acid Exchange in Bacteriophage Hk620 Tailspike Protein Results in Thousand-Fold Increase of its Oligosaccharide Affinity. Glycobiology (2013)
- Release Date
- 2011-03-02
- Peptides
- TAIL SPIKE PROTEIN: ABC
- SMTL:PDB
- SMTL Chain Id:
PDB Chain Id:A
AB
AC
A
- Coordinates
- PDB Format
- Method
- X-RAY DIFFRACTION 1.35 Å
- Oligo State
- homo-trimer
- Ligands
- 3 x NDG- GLA- NAG- GLC- GLC- RAM- NAG: alpha-D-glucopyranose-(1-6)-2-acetamido-2-deoxy-beta-D-glucopyranose-(1-3)-[alpha-L-rhamnopyranose-(1-6)-alpha-D-glucopyranose-(1-4)][2-acetamido-2-deoxy-beta-D-glucopyranose-(1-3)]alpha-D-galactopyranose-(1-3)-2-acetamido-2-deoxy-alpha-D-glucopyranose
- 9 x NA: SODIUM ION(Non-functional Binders)
- 3 x TRS: 2-AMINO-2-HYDROXYMETHYL-PROPANE-1,3-DIOL(Non-functional Binders)
- Links
- RCSB PDBe PDBe-KB PDBj PDBsum CATH PLIP
- Citation
- Broeker, N.K. et al., Single Amino Acid Exchange in Bacteriophage Hk620 Tailspike Protein Results in Thousand-Fold Increase of its Oligosaccharide Affinity. Glycobiology (2013)
- Release Date
- 2011-03-02
- Peptides
- TAIL SPIKE PROTEIN: ABC
- SMTL:PDB
- SMTL Chain Id:
PDB Chain Id:A
AB
AC
A