SMTL ID : 6twv.1 (1 other biounit)

Crystal structure of the haemagglutinin mutant (Gln226Leu) from an H10N7 seal influenza virus isolated in Germany with human receptor analogue, 6'SLN

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.55 Å

Oligo State

hetero-3-3-mer

Ligands

2 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.1: 14 residues within 4Å: Chain A: Y.90, G.127, T.128, T.129, K.130, N.138, W.146, K.152, H.178, E.185, L.189, G.220, L.221, G.223 7 PLIP interactions: 7 interactions with chain A Hydrogen bonds: A:G.220, A:Y.90, A:T.128, A:T.129, A:K.130, A:N.138, A:H.178 Hydrophobic interactions: A:W.146 NAG-GAL-SIA.3: 13 residues within 4Å: Chain E: Y.90, G.127, T.128, T.129, K.130, N.138, W.146, H.178, E.185, L.189, G.220, L.221, G.223 8 PLIP interactions: 8 interactions with chain E Hydrogen bonds: E:G.220, E:Y.90, E:T.128, E:T.129, E:K.130, E:N.138, E:H.178 Water bridges: E:S.222, E:T.128 Hydrophobic interactions: E:W.146

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

GAL-SIA.2: 9 residues within 4Å: Chain C: Y.90, G.127, T.128, T.129, K.130, N.138, W.146, E.185, L.221 5 PLIP interactions: 5 interactions with chain C Hydrophobic interactions: C:W.146 Hydrogen bonds: C:T.128, C:K.130, C:N.138, C:E.185

1 x CA: CALCIUM ION(Non-covalent)

CA.4: 5 residues within 4Å: Chain A: E.106, R.258 Chain B: E.64 Chain D: N.79 Ligands: NAG.7 2 PLIP interactions: 1 interactions with chain B, 1 interactions with chain A Metal complexes: B:E.64, A:E.106

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

NAG.5: 3 residues within 4Å: Chain A: N.30, T.313 Chain B: L.52 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:N.30 NAG.6: 5 residues within 4Å: Chain B: H.75, G.78, N.79, N.82 Chain E: E.106 1 PLIP interactions: 1 interactions with chain B Hydrogen bonds: B:N.82 NAG.7: 6 residues within 4Å: Chain A: E.106 Chain D: H.75, G.78, N.79, N.82 Ligands: CA.4 1 PLIP interactions: 1 interactions with chain D Hydrogen bonds: D:N.82 NAG.8: 2 residues within 4Å: Chain E: N.30, T.313 2 PLIP interactions: 2 interactions with chain E Hydrogen bonds: E:N.30, E:T.313 NAG.9: 5 residues within 4Å: Chain C: E.106 Chain D: E.64 Chain F: H.75, N.79, N.82 1 PLIP interactions: 1 interactions with chain F Hydrogen bonds: F:N.82

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Herfst, S. et al., Hemagglutinin Traits Determine Transmission of Avian A/H10N7 Influenza Virus between Mammals. Cell Host Microbe (2020)

Release Date

2020-10-21

Peptides

Hemagglutinin HA1: ACE
Hemagglutinin HA2: BDF

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
C

C
E

E
K

B
D

D
F

F
L

Hemagglutinin HA1

Hemagglutinin HA2

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