SMTL ID : 4xqo.1

Crystal structure of hemagglutinin from Jiangxi-Donghu (2013) H10N8 influenza virus in complex with 6'-SLN

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.85 Å

Oligo State

hetero-3-3-mer

Ligands

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.1: 6 residues within 4Å: Chain A: R.165, S.203, G.236, D.237, N.238 Chain E: P.217 No protein-ligand interaction detected (PLIP) NAG-NAG.4: 5 residues within 4Å: Chain C: P.217 Chain E: R.165, S.203, G.236, N.238 No protein-ligand interaction detected (PLIP)

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.2: 14 residues within 4Å: Chain A: Y.91, T.129, T.130, R.131, N.139, W.147, V.149, H.179, E.186, L.190, Q.218, G.221, Q.222, G.224 9 PLIP interactions: 9 interactions with chain A Hydrogen bonds: A:R.131, A:Q.218, A:Q.222, A:T.129, A:T.130, A:R.131, A:N.139, A:H.179, A:E.186, A:Q.222 Hydrophobic interactions: A:W.147, A:V.149

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

GAL-SIA.3: 13 residues within 4Å: Chain C: Y.91, G.128, T.129, T.130, R.131, W.147, V.149, H.179, E.186, L.190, Q.218, Q.222, G.224 8 PLIP interactions: 8 interactions with chain C Hydrogen bonds: C:Q.218, C:Q.222, C:Y.91, C:T.129, C:R.131, C:N.139, C:H.179, C:Q.222 Salt bridges: C:R.131 Hydrophobic interactions: C:W.147, C:V.149

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

NAG.5: 4 residues within 4Å: Chain A: N.31, T.33, T.314 Chain B: L.52 No protein-ligand interaction detected (PLIP) NAG.6: 4 residues within 4Å: Chain A: P.217 Chain C: R.165, G.236, N.238 3 PLIP interactions: 3 interactions with chain C Hydrogen bonds: C:R.165, C:G.236, C:N.238

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Zhang, H. et al., A Human-Infecting H10N8 Influenza Virus Retains a Strong Preference for Avian-type Receptors. Cell Host Microbe (2015)

Release Date

2015-04-01

Peptides

Hemagglutinin HA1 chain: ACE
Hemagglutinin HA2 chain: BDF

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

C
C

E
E

B
B

D
D

F
F

Hemagglutinin HA1 chain

Hemagglutinin HA2 chain

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