SMTL ID : 5vmg.1

Influenza hemagglutinin H1 mutant DH1E in complex with 6'SLN

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.45 Å

Oligo State

hetero-3-3-mer

Ligands

1 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.1: 10 residues within 4Å: Chain A: N.64, P.65, E.66, E.86, N.87, C.90, A.134, C.135, S.136, R.220 1 PLIP interactions: 1 interactions with chain A Water bridges: A:R.220

2 x GAL- SIA: N-acetyl-alpha-neuraminic acid-(2-6)-beta-D-galactopyranose(Non-covalent)

GAL-SIA.2: 16 residues within 4Å: Chain A: Y.91, G.130, V.131, T.132, A.133, S.141, W.149, T.151, H.179, P.181, E.186, L.190, K.218, G.221, L.222, S.224 12 PLIP interactions: 12 interactions with chain A Hydrogen bonds: A:K.218, A:Y.91, A:V.131, A:T.132, A:A.133, A:H.179, A:E.186, A:S.224, A:S.224 Hydrophobic interactions: A:W.149 Water bridges: A:V.131, A:V.131, A:S.224 GAL-SIA.3: 16 residues within 4Å: Chain C: Y.91, G.130, V.131, T.132, A.133, W.149, T.151, H.179, P.181, P.182, E.186, L.190, K.218, G.221, L.222, S.224 11 PLIP interactions: 11 interactions with chain C Hydrogen bonds: C:K.218, C:G.221, C:Y.91, C:Y.91, C:V.131, C:T.132, C:A.133, C:H.179, C:E.186, C:S.224 Hydrophobic interactions: C:W.149 Water bridges: C:V.131, C:V.131

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

NAG-NAG.4: 10 residues within 4Å: Chain E: N.64, P.65, E.66, E.86, N.87, C.90, A.134, C.135, S.136, R.220 4 PLIP interactions: 4 interactions with chain E Hydrogen bonds: E:R.220, E:R.220 Water bridges: E:A.133, E:S.136

1 x NAG- GAL- SIA: N-acetyl-alpha-neuraminic acid-(2-6)-beta-D-galactopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose

NAG-GAL-SIA.5: 18 residues within 4Å: Chain E: Y.91, G.130, V.131, T.132, A.133, A.134, S.141, W.149, T.151, H.179, P.181, P.182, E.186, L.190, K.218, G.221, L.222, S.224 8 PLIP interactions: 8 interactions with chain E Hydrogen bonds: E:K.218, E:G.221, E:Y.91, E:V.131, E:T.132, E:A.133, E:H.179, E:E.186 Hydrophobic interactions: E:W.149 Water bridges: E:V.131

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

NAG.6: 4 residues within 4Å: Chain A: S.36, N.38, N.286, S.288 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:N.286, A:S.288, A:S.288 NAG.7: 10 residues within 4Å: Chain C: N.64, P.65, E.66, E.86, N.87, C.90, A.134, C.135, S.136, R.220 5 PLIP interactions: 5 interactions with chain C Hydrophobic interactions: C:E.86 Hydrogen bonds: C:S.136, C:S.136, C:R.220, C:R.220 NAG.8: 5 residues within 4Å: Chain C: N.31, E.34, N.286, S.288, L.289 1 PLIP interactions: 1 interactions with chain C Hydrophobic interactions: C:L.289

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Ni, F. et al., Determinant of receptor-preference switch in influenza hemagglutinin. Virology (2017)

Release Date

2017-11-08

Peptides

Hemagglutinin HA1: ACE
Hemagglutinin HA2: BDF

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

C
C

E
E

B
B

D
D

F
F

Hemagglutinin HA1

Hemagglutinin HA2

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