› 5yb2

X-ray diffraction
3.8Å resolution

Crystal structure of LP-11/N44

Released:
DOI: 10.2210/pdb5yb2/pdb
PDB entry 5yb2 coloured by chain, front view.
PDB entry 5yb2 coloured by chain, side view.
PDB entry 5yb2 coloured by chain, top view.
Source organism: Human immunodeficiency virus 1
Primary publication:
Structural Insights into the Mechanisms of Action of Short-Peptide HIV-1 Fusion Inhibitors Targeting the Gp41 Pocket.
Zhang X, Zhu Y, Hu H, Zhang S, Wang P, Chong H, He J, Wang X, He Y
Front Cell Infect Microbiol 8 51 (2018)
PMID: 29535974

Function and Biology Details

Biochemical function:
  • not assigned
Biological process:
  • not assigned
Cellular component:
  • not assigned

Structure analysis Details

Assembly composition:
hetero hexamer (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-137924 (preferred)
Entry contents:
3 distinct polypeptide molecules
Macromolecules (3 distinct):
Transmembrane protein gp41 Chains: A, B, D, E, M
Molecule details ›
Chains: A, B, D, E, M
Length: 67 amino acids
Theoretical weight: 8.02 KDa
Source organism: Human immunodeficiency virus 1
Expression system: Not provided
UniProt:
  • Canonical: P04578 (Residues: 538-581; Coverage: 5%)
Gene name: env
Transmembrane protein gp41 Chains: C, F
Molecule details ›
Chains: C, F
Length: 44 amino acids
Theoretical weight: 5.04 KDa
Source organism: Human immunodeficiency virus 1
Expression system: Not provided
UniProt:
  • Canonical: P04578 (Residues: 538-581; Coverage: 5%)
Gene name: env
LP-11 Chains: G, H, I, J, K, L, P
Molecule details ›
Chains: G, H, I, J, K, L, P
Length: 23 amino acids
Theoretical weight: 3 KDa
Source organism: Human immunodeficiency virus 1
Expression system: Not provided

Ligands and Environments

No bound ligands
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: SSRF BEAMLINE BL17U1
Spacegroup: R3
Unit cell:
a: 110.884Å b: 110.884Å c: 125.382Å
α: 90° β: 90° γ: 120°
R-values:
R R work R free
0.284 0.283 0.307
Expression system: Not provided

Quick links

Citations

9 citation in other articles

Design and Characterization of Cholesterylated Peptide HIV-1/2 Fusion Inhibitors with Extremely Potent and Long-Lasting Antiviral Activity.
Zhu et al. (2019)
8 more

1 mention without citation

Structural Insights into the Mechanisms of Action of Short-Peptide HIV-1 Fusion Inhibitors Targeting the Gp41 Pocket.
Zhang et al. (2018)