SMTL ID : 3k38.4 (3 other biounits)

Crystal Structure of B/Perth Neuraminidase D197E mutant

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.19 Å

Oligo State

homo-tetramer

Ligands

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

NAG.1: 4 residues within 4Å: Chain A: Y.13, P.14, R.15, N.215 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:P.14, A:N.215 NAG.6: 3 residues within 4Å: Chain B: P.14, R.15, N.215 1 PLIP interactions: 1 interactions with chain B Hydrogen bonds: B:P.14 NAG.10: 5 residues within 4Å: Chain C: Y.13, P.14, R.15, L.16, N.215 3 PLIP interactions: 3 interactions with chain C Hydrophobic interactions: C:L.16 Hydrogen bonds: C:P.14, C:N.215 NAG.14: 4 residues within 4Å: Chain D: P.14, R.15, L.16, N.215 1 PLIP interactions: 1 interactions with chain D Hydrogen bonds: D:P.14

4 x CA: CALCIUM ION(Non-covalent)

CA.2: 6 residues within 4Å: Chain A: D.224, T.228, D.255, G.275, G.277, G.278 5 PLIP interactions: 5 interactions with chain A Metal complexes: A:D.224, A:T.228, A:D.255, A:G.275, A:G.277 CA.7: 5 residues within 4Å: Chain B: D.224, T.228, D.255, G.275, G.277 5 PLIP interactions: 5 interactions with chain B Metal complexes: B:D.224, B:T.228, B:D.255, B:G.275, B:G.277 CA.11: 5 residues within 4Å: Chain C: D.224, T.228, D.255, G.275, G.277 5 PLIP interactions: 5 interactions with chain C Metal complexes: C:D.224, C:T.228, C:D.255, C:G.275, C:G.277 CA.15: 5 residues within 4Å: Chain D: D.224, T.228, D.255, G.275, G.277 5 PLIP interactions: 5 interactions with chain D Metal complexes: D:D.224, D:T.228, D:D.255, D:G.275, D:G.277

4 x SO4: SULFATE ION(Non-functional Binders)

SO4.3: 6 residues within 4Å: Chain A: R.47, D.80, R.223, R.305, Y.340 Ligands: YT3.4 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:Y.340 Water bridges: A:Y.340 Salt bridges: A:R.47, A:R.223, A:R.305 SO4.8: 6 residues within 4Å: Chain B: R.47, D.80, R.223, R.305, Y.340 Ligands: YT3.9 4 PLIP interactions: 4 interactions with chain B Hydrogen bonds: B:Y.340 Salt bridges: B:R.47, B:R.223, B:R.305 SO4.12: 6 residues within 4Å: Chain C: R.47, D.80, R.223, R.305, Y.340 Ligands: YT3.13 5 PLIP interactions: 5 interactions with chain C Hydrogen bonds: C:Y.340, C:Y.340 Salt bridges: C:R.47, C:R.223, C:R.305 SO4.16: 6 residues within 4Å: Chain D: R.47, D.80, R.223, R.305, Y.340 Ligands: YT3.17 5 PLIP interactions: 5 interactions with chain D Hydrogen bonds: D:Y.340, D:Y.340 Salt bridges: D:R.47, D:R.223, D:R.305

5 x YT3: YTTRIUM (III) ION(Non-covalent)

YT3.4: 2 residues within 4Å: Chain A: D.80 Ligands: SO4.3 No protein-ligand interaction detected (PLIP) YT3.5: 4 residues within 4Å: Chain A: E.99 Chain B: E.99 Chain C: E.99 Chain D: E.99 No protein-ligand interaction detected (PLIP) YT3.9: 2 residues within 4Å: Chain B: D.80 Ligands: SO4.8 No protein-ligand interaction detected (PLIP) YT3.13: 2 residues within 4Å: Chain C: D.80 Ligands: SO4.12 No protein-ligand interaction detected (PLIP) YT3.17: 2 residues within 4Å: Chain D: D.80 Ligands: SO4.16 No protein-ligand interaction detected (PLIP)

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Oakley, A.J. et al., Structural and Functional Basis of Resistance to Neuraminidase Inhibitors of Influenza B Viruses. J.Med.Chem. (2010)

Release Date

2010-09-01

Peptides

Neuraminidase: ABCD

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
M

B
N

C
O

D
P

Neuraminidase

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