SMTL ID : 6bkt.2 (2 other biounits)

Crystal structure of the A/Michigan/15/2014 (H3N2) influenza virus hemagglutinin in complex with 6'-SLN

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.80 Å

Oligo State

homo-trimer

Ligands

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

NAG.1: 5 residues within 4Å: Chain A: A.147, G.150, S.151, N.154, T.156 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:N.154 Water bridges: A:A.147 NAG.6: 5 residues within 4Å: Chain B: A.147, G.150, S.151, N.154, T.156 2 PLIP interactions: 2 interactions with chain B Hydrogen bonds: B:N.154 Water bridges: B:A.147 NAG.11: 5 residues within 4Å: Chain C: A.147, G.150, S.151, N.154, T.156 2 PLIP interactions: 2 interactions with chain C Hydrogen bonds: C:N.154 Water bridges: C:A.147

6 x 1PE: PENTAETHYLENE GLYCOL(Non-functional Binders)

1PE.2: 6 residues within 4Å: Chain A: R.54, L.55, W.92 Chain B: Y.94, E.97, L.98 2 PLIP interactions: 1 interactions with chain A, 1 interactions with chain B Hydrogen bonds: A:R.54, B:E.97 1PE.3: 3 residues within 4Å: Chain A: H.26, G.33, N.146 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:N.146 Water bridges: A:H.26, A:E.30, A:R.153 1PE.7: 6 residues within 4Å: Chain B: R.54, L.55, W.92 Chain C: Y.94, E.97, L.98 2 PLIP interactions: 1 interactions with chain B, 1 interactions with chain C Hydrogen bonds: B:R.54, C:E.97 1PE.8: 3 residues within 4Å: Chain B: H.26, G.33, N.146 4 PLIP interactions: 4 interactions with chain B Hydrogen bonds: B:N.146 Water bridges: B:H.26, B:E.30, B:R.153 1PE.12: 6 residues within 4Å: Chain A: Y.94, E.97, L.98 Chain C: R.54, L.55, W.92 2 PLIP interactions: 1 interactions with chain C, 1 interactions with chain A Hydrogen bonds: C:R.54, A:E.97 1PE.13: 3 residues within 4Å: Chain C: H.26, G.33, N.146 4 PLIP interactions: 4 interactions with chain C Hydrogen bonds: C:N.146 Water bridges: C:H.26, C:E.30, C:R.153

6 x SO4: SULFATE ION(Non-functional Binders)

SO4.4: 4 residues within 4Å: Chain A: W.14, E.15, G.16, R.25 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:E.15, A:G.16 Salt bridges: A:R.25 SO4.5: 4 residues within 4Å: Chain A: R.127, H.159, N.160 Chain B: K.139 5 PLIP interactions: 4 interactions with chain A, 1 interactions with chain B Hydrogen bonds: A:N.160, A:N.160, B:Y.141 Salt bridges: A:R.127, A:H.159 SO4.9: 4 residues within 4Å: Chain B: W.14, E.15, G.16, R.25 3 PLIP interactions: 3 interactions with chain B Hydrogen bonds: B:E.15, B:G.16 Salt bridges: B:R.25 SO4.10: 4 residues within 4Å: Chain B: R.127, H.159, N.160 Chain C: K.139 5 PLIP interactions: 4 interactions with chain B, 1 interactions with chain C Hydrogen bonds: B:N.160, B:N.160, C:Y.141 Salt bridges: B:R.127, B:H.159 SO4.14: 4 residues within 4Å: Chain C: W.14, E.15, G.16, R.25 3 PLIP interactions: 3 interactions with chain C Hydrogen bonds: C:E.15, C:G.16 Salt bridges: C:R.25 SO4.15: 4 residues within 4Å: Chain A: K.139 Chain C: R.127, H.159, N.160 5 PLIP interactions: 4 interactions with chain C, 1 interactions with chain A Hydrogen bonds: C:N.160, C:N.160, A:Y.141 Salt bridges: C:R.127, C:H.159

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Wu, N.C. et al., A complex epistatic network limits the mutational reversibility in the influenza hemagglutinin receptor-binding site. Nat Commun (2018)

Release Date

2018-02-28

Peptides

Hemagglutinin: ABC

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
B

B
B

C
B

Hemagglutinin

Related Entries With Identical Sequence