- Coordinates
- PDB Format
- Method
- X-RAY DIFFRACTION 1.29 Å
- Oligo State
- homo-tetramer
- Ligands
- 4 x NAG- NAG- BMA- MAN- MAN- MAN- MAN- MAN- MAN- MAN: alpha-D-mannopyranose-(1-2)-alpha-D-mannopyranose-(1-2)-alpha-D-mannopyranose-(1-3)-[alpha-D-mannopyranose-(1-2)-alpha-D-mannopyranose-(1-6)-[alpha-D-mannopyranose-(1-3)]alpha-D-mannopyranose-(1-6)]beta-D-mannopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose
- 8 x NAG- NAG: 2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose(Post Translational Modification)
NAG-NAG.2: 2 residues within 4Å:- Chain A: N.65, W.357
No protein-ligand interaction detected (PLIP)NAG-NAG.3: 4 residues within 4Å:- Chain A: D.2, F.3, N.5, N.154
3 PLIP interactions:3 interactions with chain A- Hydrogen bonds: A:D.2
- Water bridges: A:N.154, A:N.154
NAG-NAG.18: 2 residues within 4Å:- Chain B: N.65, W.357
No protein-ligand interaction detected (PLIP)NAG-NAG.19: 4 residues within 4Å:- Chain B: D.2, F.3, N.5, N.154
3 PLIP interactions:3 interactions with chain B- Hydrogen bonds: B:D.2
- Water bridges: B:N.154, B:N.154
NAG-NAG.34: 2 residues within 4Å:- Chain C: N.65, W.357
No protein-ligand interaction detected (PLIP)NAG-NAG.35: 4 residues within 4Å:- Chain C: D.2, F.3, N.5, N.154
3 PLIP interactions:3 interactions with chain C- Hydrogen bonds: C:D.2
- Water bridges: C:N.154, C:N.154
NAG-NAG.50: 2 residues within 4Å:- Chain D: N.65, W.357
No protein-ligand interaction detected (PLIP)NAG-NAG.51: 4 residues within 4Å:- Chain D: D.2, F.3, N.5, N.154
3 PLIP interactions:3 interactions with chain D- Hydrogen bonds: D:D.2
- Water bridges: D:N.154, D:N.154
- 8 x CA: CALCIUM ION(Non-functional Binders)(Non-covalent)
CA.4: 3 residues within 4Å:- Ligands: CA.20, CA.36, CA.52
No protein-ligand interaction detected (PLIP)CA.5: 5 residues within 4Å:- Chain A: D.213, G.217, D.244, N.266, G.267
5 PLIP interactions:3 interactions with chain A, 2 Ligand-Water interactions- Metal complexes: A:D.213, A:G.217, A:D.244, H2O.1, H2O.12
CA.20: 3 residues within 4Å:- Ligands: CA.4, CA.36, CA.52
No protein-ligand interaction detected (PLIP)CA.21: 5 residues within 4Å:- Chain B: D.213, G.217, D.244, N.266, G.267
5 PLIP interactions:3 interactions with chain B, 2 Ligand-Water interactions- Metal complexes: B:D.213, B:G.217, B:D.244, H2O.24, H2O.34
CA.36: 3 residues within 4Å:- Ligands: CA.4, CA.20, CA.52
No protein-ligand interaction detected (PLIP)CA.37: 5 residues within 4Å:- Chain C: D.213, G.217, D.244, N.266, G.267
5 PLIP interactions:3 interactions with chain C, 2 Ligand-Water interactions- Metal complexes: C:D.213, C:G.217, C:D.244, H2O.47, H2O.57
CA.52: 3 residues within 4Å:- Ligands: CA.4, CA.20, CA.36
No protein-ligand interaction detected (PLIP)CA.53: 5 residues within 4Å:- Chain D: D.213, G.217, D.244, N.266, G.267
5 PLIP interactions:3 interactions with chain D, 2 Ligand-Water interactions- Metal complexes: D:D.213, D:G.217, D:D.244, H2O.69, H2O.80
- 28 x GOL: GLYCEROL(Non-functional Binders)
GOL.6: 6 residues within 4Å:- Chain A: C.11, A.333, E.334, G.335, C.337, R.339
Ligand excluded by PLIPGOL.7: 8 residues within 4Å:- Chain A: R.26
- Chain D: H.63, N.65, G.66, T.67, H.69, S.72, Y.74
Ligand excluded by PLIPGOL.8: 3 residues within 4Å:- Chain A: H.69, D.70, R.71
Ligand excluded by PLIPGOL.9: 5 residues within 4Å:- Chain A: L.188, A.189, G.190, A.192, K.193
Ligand excluded by PLIPGOL.10: 6 residues within 4Å:- Chain A: S.291, N.318, T.319, D.320, W.321
- Ligands: PO4.16
Ligand excluded by PLIPGOL.11: 8 residues within 4Å:- Chain A: D.70, R.71, W.98, S.99, R.144, T.145, E.147, E.197
Ligand excluded by PLIPGOL.12: 5 residues within 4Å:- Chain A: R.49, S.79, P.81, N.90, R.92
Ligand excluded by PLIPGOL.22: 6 residues within 4Å:- Chain B: C.11, A.333, E.334, G.335, C.337, R.339
Ligand excluded by PLIPGOL.23: 8 residues within 4Å:- Chain B: R.26
- Chain C: H.63, N.65, G.66, T.67, H.69, S.72, Y.74
Ligand excluded by PLIPGOL.24: 3 residues within 4Å:- Chain B: H.69, D.70, R.71
Ligand excluded by PLIPGOL.25: 5 residues within 4Å:- Chain B: L.188, A.189, G.190, A.192, K.193
Ligand excluded by PLIPGOL.26: 6 residues within 4Å:- Chain B: S.291, N.318, T.319, D.320, W.321
- Ligands: PO4.32
Ligand excluded by PLIPGOL.27: 8 residues within 4Å:- Chain B: D.70, R.71, W.98, S.99, R.144, T.145, E.147, E.197
Ligand excluded by PLIPGOL.28: 5 residues within 4Å:- Chain B: R.49, S.79, P.81, N.90, R.92
Ligand excluded by PLIPGOL.38: 6 residues within 4Å:- Chain C: C.11, A.333, E.334, G.335, C.337, R.339
Ligand excluded by PLIPGOL.39: 8 residues within 4Å:- Chain A: H.63, N.65, G.66, T.67, H.69, S.72, Y.74
- Chain C: R.26
Ligand excluded by PLIPGOL.40: 3 residues within 4Å:- Chain C: H.69, D.70, R.71
Ligand excluded by PLIPGOL.41: 5 residues within 4Å:- Chain C: L.188, A.189, G.190, A.192, K.193
Ligand excluded by PLIPGOL.42: 6 residues within 4Å:- Chain C: S.291, N.318, T.319, D.320, W.321
- Ligands: PO4.48
Ligand excluded by PLIPGOL.43: 8 residues within 4Å:- Chain C: D.70, R.71, W.98, S.99, R.144, T.145, E.147, E.197
Ligand excluded by PLIPGOL.44: 5 residues within 4Å:- Chain C: R.49, S.79, P.81, N.90, R.92
Ligand excluded by PLIPGOL.54: 6 residues within 4Å:- Chain D: C.11, A.333, E.334, G.335, C.337, R.339
Ligand excluded by PLIPGOL.55: 8 residues within 4Å:- Chain B: H.63, N.65, G.66, T.67, H.69, S.72, Y.74
- Chain D: R.26
Ligand excluded by PLIPGOL.56: 3 residues within 4Å:- Chain D: H.69, D.70, R.71
Ligand excluded by PLIPGOL.57: 5 residues within 4Å:- Chain D: L.188, A.189, G.190, A.192, K.193
Ligand excluded by PLIPGOL.58: 6 residues within 4Å:- Chain D: S.291, N.318, T.319, D.320, W.321
- Ligands: PO4.64
Ligand excluded by PLIPGOL.59: 8 residues within 4Å:- Chain D: D.70, R.71, W.98, S.99, R.144, T.145, E.147, E.197
Ligand excluded by PLIPGOL.60: 5 residues within 4Å:- Chain D: R.49, S.79, P.81, N.90, R.92
Ligand excluded by PLIP- 8 x K: POTASSIUM ION(Non-functional Binders)(Non-covalent)
K.13: 3 residues within 4Å:- Ligands: NAG-NAG-BMA-MAN-MAN-MAN-MAN-MAN-MAN-MAN.1, NAG-NAG-BMA-MAN-MAN-MAN-MAN-MAN-MAN-MAN.1, NAG-NAG-BMA-MAN-MAN-MAN-MAN-MAN-MAN-MAN.1
No protein-ligand interaction detected (PLIP)K.14: 4 residues within 4Å:- Chain A: A.166, E.196, R.212, N.214
1 PLIP interactions:1 interactions with chain A- Metal complexes: A:E.196
K.29: 3 residues within 4Å:- Ligands: NAG-NAG-BMA-MAN-MAN-MAN-MAN-MAN-MAN-MAN.17, NAG-NAG-BMA-MAN-MAN-MAN-MAN-MAN-MAN-MAN.17, NAG-NAG-BMA-MAN-MAN-MAN-MAN-MAN-MAN-MAN.17
No protein-ligand interaction detected (PLIP)K.30: 4 residues within 4Å:- Chain B: A.166, E.196, R.212, N.214
1 PLIP interactions:1 interactions with chain B- Metal complexes: B:E.196
K.45: 3 residues within 4Å:- Ligands: NAG-NAG-BMA-MAN-MAN-MAN-MAN-MAN-MAN-MAN.33, NAG-NAG-BMA-MAN-MAN-MAN-MAN-MAN-MAN-MAN.33, NAG-NAG-BMA-MAN-MAN-MAN-MAN-MAN-MAN-MAN.33
No protein-ligand interaction detected (PLIP)K.46: 4 residues within 4Å:- Chain C: A.166, E.196, R.212, N.214
1 PLIP interactions:1 interactions with chain C- Metal complexes: C:E.196
K.61: 3 residues within 4Å:- Ligands: NAG-NAG-BMA-MAN-MAN-MAN-MAN-MAN-MAN-MAN.49, NAG-NAG-BMA-MAN-MAN-MAN-MAN-MAN-MAN-MAN.49, NAG-NAG-BMA-MAN-MAN-MAN-MAN-MAN-MAN-MAN.49
No protein-ligand interaction detected (PLIP)K.62: 4 residues within 4Å:- Chain D: A.166, E.196, R.212, N.214
1 PLIP interactions:1 interactions with chain D- Metal complexes: D:E.196
- 4 x CO2: CARBON DIOXIDE(Covalent)
CO2.15: 5 residues within 4Å:- Chain A: R.1, D.44, P.45, D.46, E.47
3 PLIP interactions:3 interactions with chain A- Hydrogen bonds: A:R.1, A:R.1, A:D.46
CO2.31: 5 residues within 4Å:- Chain B: R.1, D.44, P.45, D.46, E.47
3 PLIP interactions:3 interactions with chain B- Hydrogen bonds: B:R.1, B:R.1, B:D.46
CO2.47: 5 residues within 4Å:- Chain C: R.1, D.44, P.45, D.46, E.47
3 PLIP interactions:3 interactions with chain C- Hydrogen bonds: C:R.1, C:R.1, C:D.46
CO2.63: 5 residues within 4Å:- Chain D: R.1, D.44, P.45, D.46, E.47
3 PLIP interactions:3 interactions with chain D- Hydrogen bonds: D:R.1, D:R.1, D:D.46
- 4 x PO4: PHOSPHATE ION(Non-functional Binders)
PO4.16: 4 residues within 4Å:- Chain A: S.286, A.288, S.289
- Ligands: GOL.10
6 PLIP interactions:6 interactions with chain A- Hydrogen bonds: A:S.286, A:S.289
- Water bridges: A:I.287, A:S.291, A:S.291, A:N.318
PO4.32: 4 residues within 4Å:- Chain B: S.286, A.288, S.289
- Ligands: GOL.26
6 PLIP interactions:6 interactions with chain B- Hydrogen bonds: B:S.286, B:S.289
- Water bridges: B:I.287, B:S.291, B:S.291, B:N.318
PO4.48: 4 residues within 4Å:- Chain C: S.286, A.288, S.289
- Ligands: GOL.42
6 PLIP interactions:6 interactions with chain C- Hydrogen bonds: C:S.286, C:S.289
- Water bridges: C:I.287, C:S.291, C:S.291, C:N.318
PO4.64: 4 residues within 4Å:- Chain D: S.286, A.288, S.289
- Ligands: GOL.58
6 PLIP interactions:6 interactions with chain D- Hydrogen bonds: D:S.286, D:S.289
- Water bridges: D:I.287, D:S.291, D:S.291, D:N.318
- Links
- RCSB PDBe PDBe-KB PDBj PDBsum CATH PLIP
- Citation
- Salinger, M.T. et al., High Resolution Structures of Viral Neuraminidase with Drugs Bound in the Active Site. (In preparation). To Be Published
- Release Date
- 2018-08-29
- Peptides
- Neuraminidase: ABCD
- SMTL:PDB
- SMTL Chain Id:
PDB Chain Id:A
AB
AC
AD
A
- Coordinates
- PDB Format
- Method
- X-RAY DIFFRACTION 1.29 Å
- Oligo State
- homo-tetramer
- Ligands
- 4 x NAG- NAG- BMA- MAN- MAN- MAN- MAN- MAN- MAN- MAN: alpha-D-mannopyranose-(1-2)-alpha-D-mannopyranose-(1-2)-alpha-D-mannopyranose-(1-3)-[alpha-D-mannopyranose-(1-2)-alpha-D-mannopyranose-(1-6)-[alpha-D-mannopyranose-(1-3)]alpha-D-mannopyranose-(1-6)]beta-D-mannopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose
- 8 x NAG- NAG: 2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose(Post Translational Modification)
- 8 x CA: CALCIUM ION(Non-functional Binders)(Non-covalent)
- 28 x GOL: GLYCEROL(Non-functional Binders)
- 8 x K: POTASSIUM ION(Non-functional Binders)(Non-covalent)
- 4 x CO2: CARBON DIOXIDE(Covalent)
- 4 x PO4: PHOSPHATE ION(Non-functional Binders)
- Links
- RCSB PDBe PDBe-KB PDBj PDBsum CATH PLIP
- Citation
- Salinger, M.T. et al., High Resolution Structures of Viral Neuraminidase with Drugs Bound in the Active Site. (In preparation). To Be Published
- Release Date
- 2018-08-29
- Peptides
- Neuraminidase: ABCD
- SMTL:PDB
- SMTL Chain Id:
PDB Chain Id:A
AB
AC
AD
A