SMTL ID : 4fvk.1 (1 other biounit)

Structural and functional characterization of neuraminidase-like molecule N10 derived from bat influenza A virus

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.20 Å

Oligo State

homo-tetramer

Ligands

4 x NAG- NAG: 2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose(Post Translational Modification)

NAG-NAG.1: 2 residues within 4Å: Chain A: N.194, T.196 No protein-ligand interaction detected (PLIP) NAG-NAG.8: 2 residues within 4Å: Chain B: N.194, T.196 No protein-ligand interaction detected (PLIP) NAG-NAG.15: 2 residues within 4Å: Chain C: N.194, T.196 No protein-ligand interaction detected (PLIP) NAG-NAG.22: 2 residues within 4Å: Chain D: N.194, T.196 No protein-ligand interaction detected (PLIP)

4 x CA: CALCIUM ION(Non-covalent)

CA.2: 5 residues within 4Å: Chain A: N.218, D.222, D.248, G.266, G.268 6 PLIP interactions: 5 interactions with chain A, 1 Ligand-Water interactions Metal complexes: A:N.218, A:D.222, A:D.248, A:G.266, A:G.268, H2O.1 CA.9: 5 residues within 4Å: Chain B: N.218, D.222, D.248, G.266, G.268 6 PLIP interactions: 5 interactions with chain B, 1 Ligand-Water interactions Metal complexes: B:N.218, B:D.222, B:D.248, B:G.266, B:G.268, H2O.8 CA.16: 5 residues within 4Å: Chain C: N.218, D.222, D.248, G.266, G.268 6 PLIP interactions: 5 interactions with chain C, 1 Ligand-Water interactions Metal complexes: C:N.218, C:D.222, C:D.248, C:G.266, C:G.268, H2O.15 CA.23: 5 residues within 4Å: Chain D: N.218, D.222, D.248, G.266, G.268 6 PLIP interactions: 5 interactions with chain D, 1 Ligand-Water interactions Metal complexes: D:N.218, D:D.222, D:D.248, D:G.266, D:G.268, H2O.22

12 x ZN: ZINC ION(Non-covalent)

ZN.3: 2 residues within 4Å: Chain A: S.91, E.358 5 PLIP interactions: 2 interactions with chain A, 3 Ligand-Water interactions Metal complexes: A:S.91, A:E.358, H2O.1, H2O.3, H2O.8 ZN.4: 3 residues within 4Å: Chain A: N.301, E.306, T.308 4 PLIP interactions: 2 interactions with chain A, 2 Ligand-Water interactions Metal complexes: A:E.306, A:T.308, H2O.1, H2O.6 ZN.5: 3 residues within 4Å: Chain A: W.78, E.80 Chain D: S.376 5 PLIP interactions: 1 interactions with chain D, 2 interactions with chain A, 2 Ligand-Water interactions Metal complexes: D:S.376, A:W.78, A:E.80, H2O.2, H2O.4 ZN.10: 2 residues within 4Å: Chain B: S.91, E.358 5 PLIP interactions: 2 interactions with chain B, 3 Ligand-Water interactions Metal complexes: B:S.91, B:E.358, H2O.8, H2O.10, H2O.15 ZN.11: 3 residues within 4Å: Chain B: N.301, E.306, T.308 4 PLIP interactions: 2 interactions with chain B, 2 Ligand-Water interactions Metal complexes: B:E.306, B:T.308, H2O.8, H2O.13 ZN.12: 3 residues within 4Å: Chain B: W.78, E.80 Chain C: S.376 5 PLIP interactions: 2 interactions with chain B, 1 interactions with chain C, 2 Ligand-Water interactions Metal complexes: B:W.78, B:E.80, C:S.376, H2O.9, H2O.11 ZN.17: 2 residues within 4Å: Chain C: S.91, E.358 5 PLIP interactions: 2 interactions with chain C, 3 Ligand-Water interactions Metal complexes: C:S.91, C:E.358, H2O.15, H2O.17, H2O.22 ZN.18: 3 residues within 4Å: Chain C: N.301, E.306, T.308 4 PLIP interactions: 2 interactions with chain C, 2 Ligand-Water interactions Metal complexes: C:E.306, C:T.308, H2O.15, H2O.20 ZN.19: 3 residues within 4Å: Chain A: S.376 Chain C: W.78, E.80 5 PLIP interactions: 2 interactions with chain C, 1 interactions with chain A, 2 Ligand-Water interactions Metal complexes: C:W.78, C:E.80, A:S.376, H2O.16, H2O.18 ZN.24: 2 residues within 4Å: Chain D: S.91, E.358 5 PLIP interactions: 2 interactions with chain D, 3 Ligand-Water interactions Metal complexes: D:S.91, D:E.358, H2O.22, H2O.24, H2O.29 ZN.25: 3 residues within 4Å: Chain D: N.301, E.306, T.308 4 PLIP interactions: 2 interactions with chain D, 2 Ligand-Water interactions Metal complexes: D:E.306, D:T.308, H2O.22, H2O.27 ZN.26: 3 residues within 4Å: Chain B: S.376 Chain D: W.78, E.80 5 PLIP interactions: 2 interactions with chain D, 1 interactions with chain B, 2 Ligand-Water interactions Metal complexes: D:W.78, D:E.80, B:S.376, H2O.23, H2O.25

8 x NAG: 2-acetamido-2-deoxy-beta-D-glucopyranose(Post Translational Modification)

NAG.6: 1 residues within 4Å: Chain A: N.73 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:N.73 NAG.7: 3 residues within 4Å: Chain A: Y.11, N.184 Chain D: L.333 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:Y.11 NAG.13: 1 residues within 4Å: Chain B: N.73 1 PLIP interactions: 1 interactions with chain B Hydrogen bonds: B:N.73 NAG.14: 3 residues within 4Å: Chain B: Y.11, N.184 Chain C: L.333 1 PLIP interactions: 1 interactions with chain B Hydrogen bonds: B:Y.11 NAG.20: 1 residues within 4Å: Chain C: N.73 1 PLIP interactions: 1 interactions with chain C Hydrogen bonds: C:N.73 NAG.21: 3 residues within 4Å: Chain A: L.333 Chain C: Y.11, N.184 1 PLIP interactions: 1 interactions with chain C Hydrogen bonds: C:Y.11 NAG.27: 1 residues within 4Å: Chain D: N.73 1 PLIP interactions: 1 interactions with chain D Hydrogen bonds: D:N.73 NAG.28: 3 residues within 4Å: Chain B: L.333 Chain D: Y.11, N.184 1 PLIP interactions: 1 interactions with chain D Hydrogen bonds: D:Y.11

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Li, Q. et al., Structural and functional characterization of neuraminidase-like molecule N10 derived from bat influenza A virus. Proc.Natl.Acad.Sci.USA (2012)

Release Date

2012-09-19

Peptides

Neuraminidase: ABCD

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
A

C
A

D
A

Neuraminidase

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