- Coordinates
- PDB Format
- Method
- X-RAY DIFFRACTION 1.59 Å
- Oligo State
- homo-trimer
- Ligands
- 3 x NDG- 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-alpha-D-glucopyranose(Non-covalent)(Non-functional Binders)
- 3 x TRS: 2-AMINO-2-HYDROXYMETHYL-PROPANE-1,3-DIOL(Non-covalent)(Non-functional Binders)
TRS.2: 4 residues within 4Å:- Chain A: D.557, I.580, G.581, R.584
4 PLIP interactions:4 interactions with chain A- Hydrogen bonds: A:D.557, A:R.584, A:R.584
- Water bridges: A:D.557
TRS.12: 4 residues within 4Å:- Chain B: D.557, I.580, G.581, R.584
4 PLIP interactions:4 interactions with chain B- Hydrogen bonds: B:D.557, B:R.584, B:R.584
- Water bridges: B:D.557
TRS.22: 4 residues within 4Å:- Chain C: D.557, I.580, G.581, R.584
4 PLIP interactions:4 interactions with chain C- Hydrogen bonds: C:D.557, C:R.584, C:R.584
- Water bridges: C:D.557
- 15 x FMT: FORMIC ACID(Non-covalent)(Non-functional Binders)
FMT.3: 4 residues within 4Å:- Chain A: W.40, V.50
- Chain C: R.27, D.31
2 PLIP interactions:2 interactions with chain C- Hydrogen bonds: C:R.27
- Water bridges: C:D.31
FMT.4: 3 residues within 4Å:- Chain A: N.555, L.556, D.557
3 PLIP interactions:3 interactions with chain A- Hydrogen bonds: A:L.556, A:D.557, A:D.557
FMT.5: 7 residues within 4Å:- Chain A: K.429, S.430, N.431, V.432, Q.462
- Chain C: D.428, E.460
4 PLIP interactions:1 interactions with chain A, 3 interactions with chain C- Water bridges: A:I.433, C:S.430
- Hydrogen bonds: C:D.428, C:D.428
FMT.6: 5 residues within 4Å:- Chain A: P.53, G.54, Y.84, T.85, Y.87
1 PLIP interactions:1 interactions with chain A- Hydrogen bonds: A:T.85
FMT.7: 1 residues within 4Å:- Chain A: R.392
3 PLIP interactions:3 interactions with chain A- Hydrogen bonds: A:R.392
- Water bridges: A:G.360, A:R.392
FMT.13: 4 residues within 4Å:- Chain A: R.27, D.31
- Chain B: W.40, V.50
2 PLIP interactions:2 interactions with chain A- Hydrogen bonds: A:R.27
- Water bridges: A:D.31
FMT.14: 3 residues within 4Å:- Chain B: N.555, L.556, D.557
3 PLIP interactions:3 interactions with chain B- Hydrogen bonds: B:L.556, B:D.557, B:D.557
FMT.15: 7 residues within 4Å:- Chain A: D.428, E.460
- Chain B: K.429, S.430, N.431, V.432, Q.462
4 PLIP interactions:3 interactions with chain A, 1 interactions with chain B- Hydrogen bonds: A:D.428, A:D.428
- Water bridges: A:S.430, B:I.433
FMT.16: 5 residues within 4Å:- Chain B: P.53, G.54, Y.84, T.85, Y.87
1 PLIP interactions:1 interactions with chain B- Hydrogen bonds: B:T.85
FMT.17: 1 residues within 4Å:- Chain B: R.392
3 PLIP interactions:3 interactions with chain B- Hydrogen bonds: B:R.392
- Water bridges: B:G.360, B:R.392
FMT.23: 4 residues within 4Å:- Chain B: R.27, D.31
- Chain C: W.40, V.50
2 PLIP interactions:2 interactions with chain B- Hydrogen bonds: B:R.27
- Water bridges: B:D.31
FMT.24: 3 residues within 4Å:- Chain C: N.555, L.556, D.557
3 PLIP interactions:3 interactions with chain C- Hydrogen bonds: C:L.556, C:D.557, C:D.557
FMT.25: 7 residues within 4Å:- Chain B: D.428, E.460
- Chain C: K.429, S.430, N.431, V.432, Q.462
4 PLIP interactions:3 interactions with chain B, 1 interactions with chain C- Hydrogen bonds: B:D.428, B:D.428
- Water bridges: B:S.430, C:I.433
FMT.26: 5 residues within 4Å:- Chain C: P.53, G.54, Y.84, T.85, Y.87
1 PLIP interactions:1 interactions with chain C- Hydrogen bonds: C:T.85
FMT.27: 1 residues within 4Å:- Chain C: R.392
3 PLIP interactions:3 interactions with chain C- Hydrogen bonds: C:R.392
- Water bridges: C:G.360, C:R.392
- 9 x NA: SODIUM ION(Non-functional Binders)(Non-covalent)
NA.8: 3 residues within 4Å:- Chain A: A.452, S.479, Q.481
2 PLIP interactions:2 interactions with chain A- Hydrogen bonds: A:S.479, A:Q.481
NA.9: 4 residues within 4Å:- Chain A: N.404
- Chain C: R.369, V.370, T.399
4 PLIP interactions:3 interactions with chain C, 1 interactions with chain A- Hydrogen bonds: C:V.370, C:T.399, A:N.404
- Water bridges: C:C.398
NA.10: 2 residues within 4Å:- Chain A: G.98
- Ligands: NDG-GLA-GLC-RAM-NAG-GLC.1
No protein-ligand interaction detected (PLIP)NA.18: 3 residues within 4Å:- Chain B: A.452, S.479, Q.481
2 PLIP interactions:2 interactions with chain B- Hydrogen bonds: B:S.479, B:Q.481
NA.19: 4 residues within 4Å:- Chain A: R.369, V.370, T.399
- Chain B: N.404
4 PLIP interactions:3 interactions with chain A, 1 interactions with chain B- Hydrogen bonds: A:V.370, A:T.399, B:N.404
- Water bridges: A:C.398
NA.20: 2 residues within 4Å:- Chain B: G.98
- Ligands: NDG-GLA-GLC-RAM-NAG-GLC.11
No protein-ligand interaction detected (PLIP)NA.28: 3 residues within 4Å:- Chain C: A.452, S.479, Q.481
2 PLIP interactions:2 interactions with chain C- Hydrogen bonds: C:S.479, C:Q.481
NA.29: 4 residues within 4Å:- Chain B: R.369, V.370, T.399
- Chain C: N.404
4 PLIP interactions:1 interactions with chain C, 3 interactions with chain B- Hydrogen bonds: C:N.404, B:T.399, B:T.399
- Water bridges: B:C.398
NA.30: 2 residues within 4Å:- Chain C: G.98
- Ligands: NDG-GLA-GLC-RAM-NAG-GLC.21
1 PLIP interactions:1 interactions with chain C- Hydrogen bonds: C:G.98
- Links
- RCSB PDBe PDBj PDBsum CATH PLIP
- Citation
- Gohlke, U. et al., Enthalpic cost of water removal from a hydrophobic glucose binding cavity on HK620 tailspike protein. to be published
- Release Date
- 2016-01-27
- Peptides
- Tail spike protein: ABC
- SMTL:PDB
- SMTL Chain Id:
PDB Chain Id:A
AB
AC
A
- Coordinates
- PDB Format
- Method
- X-RAY DIFFRACTION 1.59 Å
- Oligo State
- homo-trimer
- Ligands
- 3 x NDG- 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-alpha-D-glucopyranose(Non-covalent)(Non-functional Binders)
- 3 x TRS: 2-AMINO-2-HYDROXYMETHYL-PROPANE-1,3-DIOL(Non-covalent)(Non-functional Binders)
- 15 x FMT: FORMIC ACID(Non-covalent)(Non-functional Binders)
- 9 x NA: SODIUM ION(Non-functional Binders)(Non-covalent)
- Links
- RCSB PDBe PDBj PDBsum CATH PLIP
- Citation
- Gohlke, U. et al., Enthalpic cost of water removal from a hydrophobic glucose binding cavity on HK620 tailspike protein. to be published
- Release Date
- 2016-01-27
- Peptides
- Tail spike protein: ABC
- SMTL:PDB
- SMTL Chain Id:
PDB Chain Id:A
AB
AC
A