SMTL ID : 5vmc.1

Influenza hemagglutinin H1 mutant DH1 in complex with 6'SLN

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.15 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

3 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.2: 19 residues within 4Å: Chain A: Y.91, G.130, V.131, T.132, A.133, A.134, S.141, W.149, T.151, H.179, P.181, P.182, D.186, S.189, L.190, K.218, D.221, Q.222, G.224 12 PLIP interactions: 12 interactions with chain A Hydrophobic interactions: A:L.190, A:W.149 Hydrogen bonds: A:D.186, A:K.218, A:D.221, A:D.221, A:Y.91, A:V.131, A:T.132, A:A.133, A:H.179, A:Q.222, A:Q.222, A:Q.222 Water bridges: A:D.186, A:K.218, A:V.131, A:S.141, A:G.224 NAG-GAL-SIA.4: 17 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, D.186, S.189, L.190, K.218, D.221, Q.222, G.224 11 PLIP interactions: 11 interactions with chain C Hydrophobic interactions: C:L.190, C:W.149, C:L.190 Hydrogen bonds: C:D.186, C:K.218, C:D.221, C:D.221, C:V.131, C:T.132, C:A.133, C:H.179, C:Q.222, C:Q.222 Water bridges: C:D.186, C:V.131, C:S.141, C:S.141 NAG-GAL-SIA.6: 18 residues within 4Å: Chain E: Y.91, G.130, V.131, T.132, A.133, A.134, W.149, T.151, H.179, P.181, P.182, D.186, S.189, L.190, K.218, D.221, Q.222, G.224 12 PLIP interactions: 12 interactions with chain E Hydrophobic interactions: E:L.190, E:W.149, E:L.190 Hydrogen bonds: E:D.186, E:K.218, E:D.221, E:D.221, E:Y.91, E:V.131, E:T.132, E:A.133, E:H.179, E:Q.222, E:Q.222, E:Q.222 Water bridges: E:V.131, E:G.224

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

NAG-NAG.3: 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 1 PLIP interactions: 1 interactions with chain C Hydrogen bonds: C:R.220 NAG-NAG.5: 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 2 PLIP interactions: 2 interactions with chain E Hydrogen bonds: E:R.220, E:R.220

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

NAG.7: 5 residues within 4Å: Chain A: E.34, S.36, N.38, N.286, S.288 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:S.36, A:N.286, A:S.288 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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