SMTL ID : 7zj8.1

X-31 Hemagglutinin Precursor HA0 at pH 7.5 after reneutralization

Coordinates

PDB Format Compare

Method

ELECTRON MICROSCOPY

Oligo State

homo-trimer

Ligands

3 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: 1 residues within 4Å: Chain A: N.38 No protein-ligand interaction detected (PLIP) NAG-NAG.5: 1 residues within 4Å: Chain B: N.38 No protein-ligand interaction detected (PLIP) NAG-NAG.9: 1 residues within 4Å: Chain C: N.38 No protein-ligand interaction detected (PLIP)

3 x NAG- NAG- BMA- FUC: beta-D-mannopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-[alpha-L-fucopyranose-(1-6)]2-acetamido-2-deoxy-beta-D-glucopyranose

NAG-NAG-BMA-FUC.2: 3 residues within 4Å: Chain A: Q.80, N.81, F.120 1 PLIP interactions: 1 interactions with chain A Hydrophobic interactions: A:N.81 NAG-NAG-BMA-FUC.6: 3 residues within 4Å: Chain B: Q.80, N.81, F.120 1 PLIP interactions: 1 interactions with chain B Hydrophobic interactions: B:N.81 NAG-NAG-BMA-FUC.10: 3 residues within 4Å: Chain C: Q.80, N.81, F.120 1 PLIP interactions: 1 interactions with chain C Hydrophobic interactions: C:N.81

3 x NAG- NAG- BMA- MAN- MAN: 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

NAG-NAG-BMA-MAN-MAN.3: 5 residues within 4Å: Chain A: N.165, T.167 Chain C: S.219, P.221, W.222 1 PLIP interactions: 1 interactions with chain C Hydrogen bonds: C:W.222 NAG-NAG-BMA-MAN-MAN.7: 5 residues within 4Å: Chain A: S.219, P.221, W.222 Chain B: N.165, T.167 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:W.222 NAG-NAG-BMA-MAN-MAN.11: 5 residues within 4Å: Chain B: S.219, P.221, W.222 Chain C: N.165, T.167 1 PLIP interactions: 1 interactions with chain B Hydrogen bonds: B:W.222

3 x NAG- NAG- BMA: beta-D-mannopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose

NAG-NAG-BMA.4: 4 residues within 4Å: Chain A: S.45, N.285, V.297, E.398 No protein-ligand interaction detected (PLIP) NAG-NAG-BMA.8: 4 residues within 4Å: Chain B: S.45, N.285, V.297, E.398 No protein-ligand interaction detected (PLIP) NAG-NAG-BMA.12: 4 residues within 4Å: Chain C: S.45, N.285, V.297, E.398 No protein-ligand interaction detected (PLIP)

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

NAG.13: 2 residues within 4Å: Chain A: E.479, N.483 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:E.479 NAG.14: 1 residues within 4Å: Chain A: N.22 No protein-ligand interaction detected (PLIP) NAG.17: 2 residues within 4Å: Chain B: E.479, N.483 1 PLIP interactions: 1 interactions with chain B Hydrogen bonds: B:E.479 NAG.18: 1 residues within 4Å: Chain B: N.22 No protein-ligand interaction detected (PLIP) NAG.20: 2 residues within 4Å: Chain C: E.479, N.483 1 PLIP interactions: 1 interactions with chain C Hydrogen bonds: C:E.479 NAG.21: 1 residues within 4Å: Chain C: N.22 No protein-ligand interaction detected (PLIP)

3 x BOG: octyl beta-D-glucopyranoside(Non-covalent)

BOG.15: 6 residues within 4Å: Chain A: K.387, E.432 Chain C: I.29, D.419, S.422, L.427 4 PLIP interactions: 1 interactions with chain A, 3 interactions with chain C Salt bridges: A:K.387 Hydrophobic interactions: C:I.29, C:L.427 Hydrogen bonds: C:D.419 BOG.16: 6 residues within 4Å: Chain A: I.29, D.419, S.422, L.427 Chain B: K.387, E.432 4 PLIP interactions: 1 interactions with chain B, 3 interactions with chain A Salt bridges: B:K.387 Hydrophobic interactions: A:I.29, A:L.427 Hydrogen bonds: A:D.419 BOG.19: 6 residues within 4Å: Chain B: I.29, D.419, S.422, L.427 Chain C: K.387, E.432 4 PLIP interactions: 1 interactions with chain C, 3 interactions with chain B Salt bridges: C:K.387 Hydrophobic interactions: B:I.29, B:L.427 Hydrogen bonds: B:D.419

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Garcia-Moro, E. et al., Reversible structural changes in the influenza hemagglutinin precursor at membrane fusion pH. Proc.Natl.Acad.Sci.USA (2022)

Release Date

2022-08-17

Peptides

Hemagglutinin,Fibritin: ABC

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

C
C

Hemagglutinin,Fibritin

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