SMTL ID : 5e66.2 (1 other biounit)

The complex structure of Hemagglutinin-esterase-fusion mutant protein from the influenza D virus with receptor analog 9-N-Ac-Sia

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 3.10 Å

Oligo State

hetero-1-1-mer

Ligands

1 x NAG- NAG- BMA- MAN- MAN- MAN: alpha-D-mannopyranose-(1-3)-[alpha-D-mannopyranose-(1-6)]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-MAN.1: 11 residues within 4Å: Chain A: N.128, T.130, Q.131, N.328, A.329, E.332, L.335, Q.336, K.344 Ligands: NAG-NAG.2, NAG-NAG.2 3 PLIP interactions: 3 interactions with chain A Hydrophobic interactions: A:T.130 Hydrogen bonds: A:E.332, A:E.332

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.2: 8 residues within 4Å: Chain A: N.328, E.331, E.332, L.335, K.344 Ligands: NAG-NAG-BMA-MAN-MAN-MAN.1, NAG-NAG-BMA-MAN-MAN-MAN.1, NAG-NAG-BMA-MAN-MAN-MAN.1 No protein-ligand interaction detected (PLIP) NAG-NAG.3: 9 residues within 4Å: Chain A: N.10, E.11, S.12, M.26 Chain B: G.19, G.20, V.21, A.22, G.23 No protein-ligand interaction detected (PLIP) NAG-NAG.4: 5 residues within 4Å: Chain B: Q.55, L.56, D.59, A.62, N.107 2 PLIP interactions: 2 interactions with chain B Hydrogen bonds: B:D.59, B:D.59

1 x CAC: CACODYLATE ION(Non-covalent)

CAC.5: 9 residues within 4Å: Chain A: S.55, S.82, G.83, A.84, V.114, N.115, W.320, H.357 Ligands: 5KQ.6 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:S.55, A:G.83, A:N.115

2 x 5KQ: (6R)-5-acetamido-6-[(1S,2S)-3-acetamido-1,2-dihydroxypropyl]-3,5-dideoxy-beta-L-threo-hex-2-ulopyranosonic acid(Non-covalent)

5KQ.6: 9 residues within 4Å: Chain A: S.55, N.61, Q.63, S.67, S.82, R.324, D.354, H.357 Ligands: CAC.5 8 PLIP interactions: 8 interactions with chain A Hydrophobic interactions: A:H.357 Hydrogen bonds: A:S.55, A:N.61, A:Q.63, A:S.82, A:D.354, A:D.354 Salt bridges: A:R.324 5KQ.7: 10 residues within 4Å: Chain A: F.125, T.169, A.170, S.171, W.183, A.185, F.227, Y.229, V.273, F.295 8 PLIP interactions: 8 interactions with chain A Hydrophobic interactions: A:W.183, A:A.185, A:F.227, A:V.273, A:F.295 Hydrogen bonds: A:T.169, A:T.169, A:S.171

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

NAG.8: 3 residues within 4Å: Chain B: N.58, D.59, E.65 2 PLIP interactions: 2 interactions with chain B Hydrogen bonds: B:N.61, B:E.65

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Song, H. et al., An Open Receptor-Binding Cavity of Hemagglutinin-Esterase-Fusion Glycoprotein from Newly-Identified Influenza D Virus: Basis for Its Broad Cell Tropism. PLoS Pathog. (2016)

Release Date

2016-03-23

Peptides

Hemagglutinin-esterase: A
Hemagglutinin-esterase: B

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

Hemagglutinin-esterase

Hemagglutinin-esterase

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