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Cryo-EM structure of BG505 SOSIP HIV-1 Env trimer in complex with CD4 receptor (D1D2) and broadly neutralizing darpin bnD.9

Electron Microscopy
3.87Å resolution
PDB entry 7txd coloured by chain, front view.
PDB entry 7txd coloured by chain, side view.
PDB entry 7txd coloured by chain, top view.
Source organisms:
Assembly composition:
hetero dodecamer (preferred)
Entry contents: 4 distinct polypeptide molecules

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Assemblies

Assembly 1 (preferred)
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Multimeric state: hetero dodecamer
Accessible surface area: 125308.85 Å2
Buried surface area: 56397.49 Å2
Dissociation area: 3,048.73 Å2
Dissociation energy (ΔGdiss): 11.04 kcal/mol
Dissociation entropy (TΔSdiss): 32.51 kcal/mol
Symmetry number: 1
PDBe Complex ID: PDB-CPX-199818

Macromolecules

Envelope glycoprotein gp160
Chains: A, C, E
Length: 481 amino acids
Theoretical weight: 54.06 KDa
Source organism: Human immunodeficiency virus 1
Expression system: Homo sapiens
UniProt:
  • Canonical: Q2N0S6 (Residues: 30-505; Coverage: 55%)
Gene name: env
Pfam: Envelope glycoprotein GP120
InterPro:
Envelope glycoprotein gp160 in PDB entry 7txd, assembly 1, front view.
Envelope glycoprotein gp160 in PDB entry 7txd, assembly 1, side view.
Envelope glycoprotein gp160 in PDB entry 7txd, assembly 1, top view.
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Transmembrane protein gp41
Chains: B, D, F
Length: 153 amino acids
Theoretical weight: 17.15 KDa
Source organism: Human immunodeficiency virus 1
Expression system: Homo sapiens
UniProt:
  • Canonical: Q2N0S6 (Residues: 509-661; Coverage: 18%)
Gene name: env
Pfam: Retroviral envelope protein
InterPro: Retroviral envelope protein GP41-like
Transmembrane protein gp41 in PDB entry 7txd, assembly 1, front view.
Transmembrane protein gp41 in PDB entry 7txd, assembly 1, side view.
Transmembrane protein gp41 in PDB entry 7txd, assembly 1, top view.
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T-cell surface glycoprotein CD4
Chains: G, H, I
Length: 185 amino acids
Theoretical weight: 20.5 KDa
Source organism: Homo sapiens
Expression system: Homo sapiens
UniProt:
  • Canonical: P01730 (Residues: 26-208; Coverage: 42%)
Gene name: CD4
Pfam:
InterPro:
T-cell surface glycoprotein CD4 in PDB entry 7txd, assembly 1, front view.
T-cell surface glycoprotein CD4 in PDB entry 7txd, assembly 1, side view.
T-cell surface glycoprotein CD4 in PDB entry 7txd, assembly 1, top view.
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Broadly neutralizing darpin bnd.9
Chains: J, K, L
Length: 196 amino acids
Theoretical weight: 21.21 KDa
Source organism: synthetic construct
Expression system: Homo sapiens
InterPro:
Broadly neutralizing darpin bnd.9 in PDB entry 7txd, assembly 1, front view.
Broadly neutralizing darpin bnd.9 in PDB entry 7txd, assembly 1, side view.
Broadly neutralizing darpin bnd.9 in PDB entry 7txd, assembly 1, top view.
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