2WLV

Structure of the N-terminal capsid domain of HIV-2


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.25 Å
  • R-Value Free: 0.184 
  • R-Value Work: 0.153 
  • R-Value Observed: 0.155 

wwPDB Validation   3D Report Full Report


This is version 1.2 of the entry. See complete history


Literature

Active Site Remodelling Switches HIV Specificity of Antiretroviral Trimcyp

Price, A.J.Marzetta, F.Lammers, M.Ylinen, L.M.J.Schaller, T.Wilson, S.J.Towers, G.J.James, L.C.

(2009) Nat Struct Mol Biol 16: 1036

  • DOI: 10.1038/nsmb.1667
  • Primary Citation of Related Structures:  
    2WLW, 2WLV

  • PubMed Abstract: 
  • TRIMCyps are primate antiretroviral proteins that potently inhibit HIV replication. Here we describe how rhesus macaque TRIMCyp (RhTC) has evolved to target and restrict HIV-2. We show that the ancestral cyclophilin A (CypA) domain of RhTC targets HIV-2 capsid with weak affinity, which is strongly increased in RhTC by two mutations (D66N and R69H) at the expense of HIV-1 binding ...

    TRIMCyps are primate antiretroviral proteins that potently inhibit HIV replication. Here we describe how rhesus macaque TRIMCyp (RhTC) has evolved to target and restrict HIV-2. We show that the ancestral cyclophilin A (CypA) domain of RhTC targets HIV-2 capsid with weak affinity, which is strongly increased in RhTC by two mutations (D66N and R69H) at the expense of HIV-1 binding. These mutations disrupt a constraining intramolecular interaction in CypA, triggering the complete restructuring (>16 A) of an active site loop. This new configuration discriminates between divergent HIV-1 and HIV-2 loop conformations mediated by capsid residue 88. Viral sensitivity to RhTC restriction can be conferred or abolished by mutating position 88. Furthermore, position 88 determines the susceptibility of naturally occurring HIV-1 sequences to restriction. Our results reveal the complex molecular, structural and thermodynamic changes that underlie the ongoing evolutionary race between virus and host.


    Organizational Affiliation

    Protein and Nucleic Acid Chemistry Division, Medical Research Council Laboratory of Molecular Biology, Cambridge, UK.



Macromolecules
Find similar proteins by:  (by identity cutoff)  |  Structure
Entity ID: 1
MoleculeChainsSequence LengthOrganismDetailsImage
GAG POLYPROTEINA144Human immunodeficiency virus type 2 (ISOLATE D194)Mutation(s): 0 
Find proteins for P04590 (Human immunodeficiency virus type 2 subtype A (isolate ROD))
Explore P04590 
Go to UniProtKB:  P04590
Protein Feature View
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  • Reference Sequence
Find similar proteins by:  (by identity cutoff)  |  Structure
Entity ID: 2
MoleculeChainsSequence LengthOrganismDetailsImage
GAG POLYPROTEINB144Human immunodeficiency virus type 2 (ISOLATE D194)Mutation(s): 0 
Find proteins for P04590 (Human immunodeficiency virus type 2 subtype A (isolate ROD))
Explore P04590 
Go to UniProtKB:  P04590
Protein Feature View
Expand
  • Reference Sequence
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.25 Å
  • R-Value Free: 0.184 
  • R-Value Work: 0.153 
  • R-Value Observed: 0.155 
  • Space Group: P 21 21 2
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 95.52α = 90
b = 47.815β = 90
c = 88.57γ = 90
Software Package:
Software NamePurpose
REFMACrefinement

Structure Validation

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Entry History 

Deposition Data

Revision History  (Full details and data files)

  • Version 1.0: 2009-09-22
    Type: Initial release
  • Version 1.1: 2013-04-24
    Changes: Atomic model, Database references, Derived calculations, Other, Refinement description, Source and taxonomy, Structure summary, Version format compliance
  • Version 1.2: 2014-03-12
    Changes: Source and taxonomy