SMTL ID : 4gb1.1

Synthesis and Evaluation of Novel 3-C-alkylated-Neu5Ac2en Derivatives as Probes of Influenza Virus Sialidase 150-loop flexibility

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.62 Å

Oligo State

homo-tetramer

Ligands

4 x 0LP: 5-acetamido-2,6-anhydro-3,5-dideoxy-3-[(2E)-3-phenylprop-2-en-1-yl]-D-glycero-L-altro-non-2-enonic acid(Non-covalent)

0LP.1: 13 residues within 4Å: Chain A: R.36, E.37, Q.54, D.69, R.70, R.74, R.143, A.165, E.195, E.196, R.211, R.288, Y.322 11 PLIP interactions: 11 interactions with chain A Hydrophobic interactions: A:R.36, A:D.69 Hydrogen bonds: A:R.70, A:R.143, A:R.143, A:R.211, A:R.211 Water bridges: A:E.37, A:E.37 Salt bridges: A:R.211, A:R.288 0LP.3: 13 residues within 4Å: Chain B: R.36, E.37, Q.54, D.69, R.70, R.74, R.143, A.165, E.195, E.196, R.211, R.288, Y.322 11 PLIP interactions: 11 interactions with chain B Hydrophobic interactions: B:R.36, B:D.69 Hydrogen bonds: B:R.70, B:R.143, B:R.143, B:R.211, B:R.211 Water bridges: B:E.37, B:E.37 Salt bridges: B:R.211, B:R.288 0LP.5: 13 residues within 4Å: Chain C: R.36, E.37, Q.54, D.69, R.70, R.74, R.143, A.165, E.195, E.196, R.211, R.288, Y.322 11 PLIP interactions: 11 interactions with chain C Hydrophobic interactions: C:R.36, C:D.69 Hydrogen bonds: C:R.70, C:R.143, C:R.143, C:R.211, C:R.211 Water bridges: C:E.37, C:E.37 Salt bridges: C:R.211, C:R.288 0LP.7: 13 residues within 4Å: Chain D: R.36, E.37, Q.54, D.69, R.70, R.74, R.143, A.165, E.195, E.196, R.211, R.288, Y.322 11 PLIP interactions: 11 interactions with chain D Hydrophobic interactions: D:R.36, D:D.69 Hydrogen bonds: D:R.70, D:R.143, D:R.143, D:R.211, D:R.211 Water bridges: D:E.37, D:E.37 Salt bridges: D:R.211, D:R.288

4 x CA: CALCIUM ION(Non-covalent)

CA.2: 6 residues within 4Å: Chain A: D.212, G.216, D.242, G.263, Y.264, G.265 3 PLIP interactions: 3 interactions with chain A Metal complexes: A:D.212, A:D.242, A:Y.264 CA.4: 6 residues within 4Å: Chain B: D.212, G.216, D.242, G.263, Y.264, G.265 3 PLIP interactions: 3 interactions with chain B Metal complexes: B:D.212, B:D.242, B:Y.264 CA.6: 6 residues within 4Å: Chain C: D.212, G.216, D.242, G.263, Y.264, G.265 3 PLIP interactions: 3 interactions with chain C Metal complexes: C:D.212, C:D.242, C:Y.264 CA.8: 6 residues within 4Å: Chain D: D.212, G.216, D.242, G.263, Y.264, G.265 3 PLIP interactions: 3 interactions with chain D Metal complexes: D:D.212, D:D.242, D:Y.264

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Rudrawar, S. et al., Synthesis and evaluation of novel 3-C-alkylated-Neu5Ac2en derivatives as probes of influenza virus sialidase 150-loop flexibility. Org.Biomol.Chem. (2012)

Release Date

2012-09-26

Peptides

Neuraminidase: ABCD

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
A

C
A

D
A

Neuraminidase

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