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Solution structure of the HIV-1 nucleocapsid (NCp7(12-55)) complexed with the DNA (-) Primer Binding Site

Solution NMR
PDB entry 2exf coloured by chain, ensemble of 10 models, front view.
PDB entry 2exf coloured by chain, ensemble of 10 models, side view.
PDB entry 2exf coloured by chain, ensemble of 10 models, top view.
Source organisms:
Assembly composition:
hetero dimer (preferred)
Entry contents: 1 distinct polypeptide molecule
1 distinct DNA molecule

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Assemblies

Assembly 1 (preferred)
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Assembly Name: Protease and DNA
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Multimeric state: hetero dimer
Accessible surface area: 5178.34 Å2
Buried surface area: 1662.48 Å2
Dissociation area: 831.24 Å2
Dissociation energy (ΔGdiss): -0.35 kcal/mol
Dissociation entropy (TΔSdiss): 9.17 kcal/mol
Symmetry number: 1
PDBe Complex ID: PDB-CPX-115226

Macromolecules

Nucleocapsid protein p7
Chain: A
Length: 44 amino acids
Theoretical weight: 5.02 KDa
Source organism: Human immunodeficiency virus 1
Expression system: Not provided
UniProt:
  • Canonical: P03366 (Residues: 390-432; Coverage: 3%)
Gene name: gag-pol
Pfam: Zinc knuckle
InterPro:
CATH: Zinc finger, CCHC-type
SCOP: Retrovirus zinc finger-like domains
Nucleocapsid protein p7 in PDB entry 2exf, assembly 1, front view.
Nucleocapsid protein p7 in PDB entry 2exf, assembly 1, side view.
Nucleocapsid protein p7 in PDB entry 2exf, assembly 1, top view.
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DNA chain B
Name: 5'-D(*GP*TP*CP*CP*CP*TP*GP*TP*TP*CP*GP*GP*GP*C)-3'
Representative chains: B
Source organism: Human immunodeficiency virus type 1 BH10 [11678]
Expression system: Not provided
Length: 14 nucleotides
Theoretical weight: 4.26 KDa
5'-D(*GP*TP*CP*CP*CP*TP*GP*TP*TP*CP*GP*GP*GP*C)-3' in PDB entry 2exf, assembly 1, front view.
5'-D(*GP*TP*CP*CP*CP*TP*GP*TP*TP*CP*GP*GP*GP*C)-3' in PDB entry 2exf, assembly 1, side view.
5'-D(*GP*TP*CP*CP*CP*TP*GP*TP*TP*CP*GP*GP*GP*C)-3' in PDB entry 2exf, assembly 1, top view.
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