› 4mhj

X-ray diffraction
6.98Å resolution

Crystal structure of Fab H5M9 in complex with influenza virus hemagglutinin from A/goose/Guangdong/1/96 (H5N1)

Released:
DOI: 10.2210/pdb4mhj/pdb
PDB entry 4mhj coloured by chain, front view.
PDB entry 4mhj coloured by chain, side view.
PDB entry 4mhj coloured by chain, top view.
Source organisms:
Primary publication:
A unique and conserved neutralization epitope in H5N1 influenza viruses identified by an antibody against the A/Goose/Guangdong/1/96 hemagglutinin.
Zhu X, Guo YH, Jiang T, Wang YD, Chan KH, Li XF, Yu W, McBride R, Paulson JC, Yuen KY, Qin CF, Che XY, Wilson IA
J Virol 87 12619-35 (2013)
PMID: 24049169

Function and Biology Details

Biochemical function:
Biological process:
Cellular component:
Sequence domains:

Structure analysis Details

Assemblies composition:
hetero dodecamer (preferred)
hetero dimer
hetero hexamer
Assembly name:
PDBe Complex ID:
PDB-CPX-212808 (preferred)
Entry contents:
4 distinct polypeptide molecules
Macromolecules (9 distinct):
Hemagglutinin HA1 chain Chains: A, C, G, M, O, S
Molecule details ›
Chains: A, C, G, M, O, S
Length: 334 amino acids
Theoretical weight: 37.81 KDa
Source organism: Influenza A virus (A/goose/Guangdong/1/1996(H5N1))
Expression system: Trichoplusia ni
UniProt:
  • Canonical: Q9Q0U6 (Residues: 17-346; Coverage: 60%)
Gene name: HA
Sequence domains: Haemagglutinin
Hemagglutinin HA2 chain Chains: B, D, I, N, P, U
Molecule details ›
Chains: B, D, I, N, P, U
Length: 182 amino acids
Theoretical weight: 20.89 KDa
Source organism: Influenza A virus (A/goose/Guangdong/1/1996(H5N1))
Expression system: Trichoplusia ni
UniProt:
  • Canonical: Q9Q0U6 (Residues: 347-521; Coverage: 32%)
Gene name: HA
Sequence domains: Haemagglutinin
H5M9 antibody, light chain (kappa) Chains: E, J, L, Q, V, X
Molecule details ›
Chains: E, J, L, Q, V, X
Length: 218 amino acids
Theoretical weight: 24.05 KDa
Source organism: Mus musculus
Expression system: Not provided
H5M9 antibody, heavy chain (IgG1) Chains: F, H, K, R, T, W
Molecule details ›
Chains: F, H, K, R, T, W
Length: 222 amino acids
Theoretical weight: 23.94 KDa
Source organism: Mus musculus
Expression system: Not provided

Ligands and Environments

Carbohydrate polymer : NEW Components: NAG, MAN
Carbohydrate polymer
Carbohydrate polymer : NEW Components: NAG, MAN, BMA
Carbohydrate polymer
Carbohydrate polymer : NEW Components: NAG
Carbohydrate polymer
Carbohydrate polymer : NEW Components: NAG, BMA
Carbohydrate polymer
Carbohydrate polymer : NEW Components: NAG, MAN, BMA
Carbohydrate polymer
1 bound ligand:
Ligand NAG 6 x NAG
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: SSRL BEAMLINE BL11-1
Spacegroup: P3121
Unit cell:
a: 199.552Å b: 199.552Å c: 466.886Å
α: 90° β: 90° γ: 120°
R-values:
R R work R free
0.38 0.377 0.387
Expression systems:
  • Trichoplusia ni
  • Not provided

Quick links

Citations

9 review citations

Influenza Hemagglutinin Structures and Antibody Recognition.
Wu et al. (2020)
8 more

4 mentions without citation

A Perspective on the Structural and Functional Constraints for Immune Evasion: Insights from Influenza Virus.
Wu et al. (2017)
3 more