- Coordinates
- PDB Format
- Method
- X-RAY DIFFRACTION 1.45 Å
- Oligo State
- homo-trimer
- Ligands
- 3 x NDG- GLA- GLC- RAM- NAG: 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
- 3 x TRS: 2-AMINO-2-HYDROXYMETHYL-PROPANE-1,3-DIOL(Non-functional Binders)
TRS.2: 3 residues within 4Å:- Chain A: V.458, N.459, Y.487
2 PLIP interactions:1 interactions with chain A, 1 interactions with chain B- Hydrogen bonds: A:N.459
- Water bridges: B:E.469
TRS.11: 3 residues within 4Å:- Chain B: V.458, N.459, Y.487
2 PLIP interactions:1 interactions with chain B, 1 interactions with chain C- Hydrogen bonds: B:N.459
- Water bridges: C:E.469
TRS.20: 3 residues within 4Å:- Chain C: V.458, N.459, Y.487
2 PLIP interactions:1 interactions with chain C, 1 interactions with chain A- Hydrogen bonds: C:N.459
- Water bridges: A:E.469
- 12 x FMT: FORMIC ACID(Non-functional Binders)
FMT.3: 3 residues within 4Å:- Chain A: N.558, L.559, D.560
3 PLIP interactions:3 interactions with chain A- Hydrogen bonds: A:L.559, A:D.560, A:D.560
FMT.4: 5 residues within 4Å:- Chain A: P.56, G.57, Y.87, T.88, Y.90
1 PLIP interactions:1 interactions with chain A- Hydrogen bonds: A:T.88
FMT.5: 7 residues within 4Å:- Chain A: T.523, V.524, N.525, S.539, T.540, D.541, Y.544
6 PLIP interactions:6 interactions with chain A- Hydrogen bonds: A:N.525, A:T.540, A:D.541, A:D.541
- Water bridges: A:N.525, A:T.540
FMT.6: 4 residues within 4Å:- Chain A: R.30, D.34
- Chain B: W.43, V.53
2 PLIP interactions:2 interactions with chain A- Hydrogen bonds: A:R.30
- Water bridges: A:D.34
FMT.12: 3 residues within 4Å:- Chain B: N.558, L.559, D.560
3 PLIP interactions:3 interactions with chain B- Hydrogen bonds: B:L.559, B:D.560, B:D.560
FMT.13: 5 residues within 4Å:- Chain B: P.56, G.57, Y.87, T.88, Y.90
1 PLIP interactions:1 interactions with chain B- Hydrogen bonds: B:T.88
FMT.14: 7 residues within 4Å:- Chain B: T.523, V.524, N.525, S.539, T.540, D.541, Y.544
6 PLIP interactions:6 interactions with chain B- Hydrogen bonds: B:N.525, B:T.540, B:D.541, B:D.541
- Water bridges: B:N.525, B:T.540
FMT.15: 4 residues within 4Å:- Chain B: R.30, D.34
- Chain C: W.43, V.53
2 PLIP interactions:2 interactions with chain B- Hydrogen bonds: B:R.30
- Water bridges: B:D.34
FMT.21: 3 residues within 4Å:- Chain C: N.558, L.559, D.560
3 PLIP interactions:3 interactions with chain C- Hydrogen bonds: C:L.559, C:D.560, C:D.560
FMT.22: 5 residues within 4Å:- Chain C: P.56, G.57, Y.87, T.88, Y.90
1 PLIP interactions:1 interactions with chain C- Hydrogen bonds: C:T.88
FMT.23: 7 residues within 4Å:- Chain C: T.523, V.524, N.525, S.539, T.540, D.541, Y.544
6 PLIP interactions:6 interactions with chain C- Hydrogen bonds: C:N.525, C:T.540, C:D.541, C:D.541
- Water bridges: C:N.525, C:T.540
FMT.24: 4 residues within 4Å:- Chain A: W.43, V.53
- Chain C: R.30, D.34
2 PLIP interactions:2 interactions with chain C- Hydrogen bonds: C:R.30
- Water bridges: C:D.34
- 9 x NA: SODIUM ION(Non-functional Binders)
NA.7: 3 residues within 4Å:- Chain A: A.455, S.482, Q.484
2 PLIP interactions:2 interactions with chain A- Hydrogen bonds: A:S.482, A:Q.484
NA.8: 4 residues within 4Å:- Chain A: N.407
- Chain C: R.372, V.373, T.402
3 PLIP interactions:2 interactions with chain C, 1 interactions with chain A- Hydrogen bonds: C:T.402, A:N.407
- Water bridges: C:C.401
NA.9: 2 residues within 4Å:- Chain A: G.101
- Ligands: NDG-GLA-GLC-RAM-NAG.1
1 PLIP interactions:1 interactions with chain A- Hydrogen bonds: A:G.101
NA.16: 3 residues within 4Å:- Chain B: A.455, S.482, Q.484
2 PLIP interactions:2 interactions with chain B- Hydrogen bonds: B:S.482, B:Q.484
NA.17: 4 residues within 4Å:- Chain A: R.372, V.373, T.402
- Chain B: N.407
3 PLIP interactions:2 interactions with chain A, 1 interactions with chain B- Hydrogen bonds: A:V.373, B:N.407
- Water bridges: A:C.401
NA.18: 2 residues within 4Å:- Chain B: G.101
- Ligands: NDG-GLA-GLC-RAM-NAG.10
1 PLIP interactions:1 interactions with chain B- Hydrogen bonds: B:G.101
NA.25: 3 residues within 4Å:- Chain C: A.455, S.482, Q.484
2 PLIP interactions:2 interactions with chain C- Hydrogen bonds: C:A.455, C:Q.484
NA.26: 4 residues within 4Å:- Chain B: R.372, V.373, T.402
- Chain C: N.407
3 PLIP interactions:2 interactions with chain B, 1 interactions with chain C- Hydrogen bonds: B:T.402, C:N.407
- Water bridges: B:C.401
NA.27: 2 residues within 4Å:- Chain C: G.101
- Ligands: NDG-GLA-GLC-RAM-NAG.19
No protein-ligand interaction detected (PLIP)- Links
- RCSB PDBe PDBe-KB 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
- 2016-01-20
- Peptides
- Tail spike protein: ABC
- SMTL:PDB
- SMTL Chain Id:
PDB Chain Id:A
AB
AC
A
- Coordinates
- PDB Format
- Method
- X-RAY DIFFRACTION 1.45 Å
- Oligo State
- homo-trimer
- Ligands
- 3 x NDG- GLA- GLC- RAM- NAG: 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
- 3 x TRS: 2-AMINO-2-HYDROXYMETHYL-PROPANE-1,3-DIOL(Non-functional Binders)
- 12 x FMT: FORMIC ACID(Non-functional Binders)
- 9 x NA: SODIUM ION(Non-functional Binders)
- Links
- RCSB PDBe PDBe-KB 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
- 2016-01-20
- Peptides
- Tail spike protein: ABC
- SMTL:PDB
- SMTL Chain Id:
PDB Chain Id:A
AB
AC
A