- Coordinates
- PDB Format
- Method
- X-RAY DIFFRACTION 1.50 Å
- Oligo State
- homo-trimer
- Ligands
- 3 x NAG- GLA- GLC- RAM- NAG- GLC: alpha-L-rhamnopyranose-(1-6)-alpha-D-glucopyranose-(1-4)-[2-acetamido-2-deoxy-beta-D-glucopyranose-(1-3)]alpha-D-galactopyranose-(1-3)-[alpha-D-glucopyranose-(1-6)]2-acetamido-2-deoxy-beta-D-glucopyranose
- 12 x NA: SODIUM ION(Non-functional Binders)
NA.2: 3 residues within 4Å:- Chain A: A.456, S.483, Q.485
2 PLIP interactions:2 interactions with chain A- Hydrogen bonds: A:S.483, A:Q.485
NA.3: 3 residues within 4Å:- Chain A: Y.284
- Ligands: NAG-GLA-GLC-RAM-NAG-GLC.1, NAG-GLA-GLC-RAM-NAG-GLC.1
2 PLIP interactions:2 interactions with chain A- Hydrogen bonds: A:Y.284
- Water bridges: A:Y.284
NA.4: 2 residues within 4Å:- Chain A: G.102
- Ligands: NAG-GLA-GLC-RAM-NAG-GLC.1
1 PLIP interactions:1 interactions with chain A- Hydrogen bonds: A:G.102
NA.5: 7 residues within 4Å:- Chain A: D.230, H.231, S.232, I.258, C.260, E.263
- Ligands: NAG-GLA-GLC-RAM-NAG-GLC.1
4 PLIP interactions:4 interactions with chain A- Hydrogen bonds: A:H.231, A:I.258
- Water bridges: A:Y.284, A:Y.284
NA.8: 3 residues within 4Å:- Chain B: A.456, S.483, Q.485
2 PLIP interactions:2 interactions with chain B- Hydrogen bonds: B:Q.485, B:Q.485
NA.9: 3 residues within 4Å:- Chain B: Y.284
- Ligands: NAG-GLA-GLC-RAM-NAG-GLC.7, NAG-GLA-GLC-RAM-NAG-GLC.7
2 PLIP interactions:2 interactions with chain B- Hydrogen bonds: B:Y.284
- Water bridges: B:Y.284
NA.10: 2 residues within 4Å:- Chain B: G.102
- Ligands: NAG-GLA-GLC-RAM-NAG-GLC.7
1 PLIP interactions:1 interactions with chain B- Water bridges: B:G.102
NA.11: 7 residues within 4Å:- Chain B: D.230, H.231, S.232, I.258, C.260, E.263
- Ligands: NAG-GLA-GLC-RAM-NAG-GLC.7
4 PLIP interactions:4 interactions with chain B- Hydrogen bonds: B:D.230, B:H.231
- Water bridges: B:Y.284, B:Y.284
NA.14: 3 residues within 4Å:- Chain C: A.456, S.483, Q.485
2 PLIP interactions:2 interactions with chain C- Hydrogen bonds: C:Q.485, C:Q.485
NA.15: 3 residues within 4Å:- Chain C: Y.284
- Ligands: NAG-GLA-GLC-RAM-NAG-GLC.13, NAG-GLA-GLC-RAM-NAG-GLC.13
2 PLIP interactions:2 interactions with chain C- Hydrogen bonds: C:Y.284
- Water bridges: C:Y.284
NA.16: 2 residues within 4Å:- Chain C: G.102
- Ligands: NAG-GLA-GLC-RAM-NAG-GLC.13
1 PLIP interactions:1 interactions with chain C- Hydrogen bonds: C:G.102
NA.17: 7 residues within 4Å:- Chain C: D.230, H.231, S.232, I.258, C.260, E.263
- Ligands: NAG-GLA-GLC-RAM-NAG-GLC.13
4 PLIP interactions:4 interactions with chain C- Hydrogen bonds: C:H.231, C:E.263
- Water bridges: C:Y.284, C:Y.284
- 3 x TRS: 2-AMINO-2-HYDROXYMETHYL-PROPANE-1,3-DIOL(Non-functional Binders)
TRS.6: 3 residues within 4Å:- Chain A: V.459, N.460, Y.488
3 PLIP interactions:1 interactions with chain A, 2 interactions with chain C- Hydrogen bonds: A:N.460
- Water bridges: C:E.470, C:E.470
TRS.12: 3 residues within 4Å:- Chain B: V.459, N.460, Y.488
3 PLIP interactions:1 interactions with chain B, 2 interactions with chain A- Hydrogen bonds: B:N.460
- Water bridges: A:E.470, A:E.470
TRS.18: 3 residues within 4Å:- Chain C: V.459, N.460, Y.488
3 PLIP interactions:1 interactions with chain C, 2 interactions with chain B- Hydrogen bonds: C:N.460
- Water bridges: B:E.470, B:E.470
- 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
- 2011-03-23
- Peptides
- TAILSPIKE PROTEIN HK620: ABC
- SMTL:PDB
- SMTL Chain Id:
PDB Chain Id:A
AB
AC
A
- Coordinates
- PDB Format
- Method
- X-RAY DIFFRACTION 1.50 Å
- Oligo State
- homo-trimer
- Ligands
- 3 x NAG- GLA- GLC- RAM- NAG- GLC: alpha-L-rhamnopyranose-(1-6)-alpha-D-glucopyranose-(1-4)-[2-acetamido-2-deoxy-beta-D-glucopyranose-(1-3)]alpha-D-galactopyranose-(1-3)-[alpha-D-glucopyranose-(1-6)]2-acetamido-2-deoxy-beta-D-glucopyranose
- 12 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
- 2011-03-23
- Peptides
- TAILSPIKE PROTEIN HK620: ABC
- SMTL:PDB
- SMTL Chain Id:
PDB Chain Id:A
AB
AC
A