Biological Assembly 1  

 3D View: Structure | 1D-3D View | Electron Density | Validation Report | Ligand Interaction

Global Symmetry: Asymmetric - C1 
Global Stoichiometry: Hetero 2-mer - A1B1 

Biological assembly 1 assigned by authors and generated by PISA (software)

Macromolecule Content

• Total Structure Weight: 116.93 kDa 
• Atom Count: 8168 
• Modelled Residue Count: 940 
• Deposited Residue Count: 981 
• Unique protein chains: 2

1MU2

CRYSTAL STRUCTURE OF HIV-2 REVERSE TRANSCRIPTASE

• PDB DOI: 10.2210/pdb1MU2/pdb

• Classification: TRANSFERASE
• Organism(s): Human immunodeficiency virus 2
• Expression System: Escherichia coli
• Mutation(s): Yes 


• Deposited: 2002-09-23 Released: 2002-10-30 
• Deposition Author(s): Ren, J., Bird, L.E., Chamberlain, P.P., Stewart-Jones, G.B., Stuart, D.I., Stammers, D.K.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 2.35 Å
• R-Value Free: 0.240 
• R-Value Work: 0.192 

Literature

Structure of HIV-2 reverse transcriptase at 2.35-A resolution and the mechanism of resistance to non-nucleoside inhibitors

Ren, J., Bird, L.E., Chamberlain, P.P., Stewart-Jones, G.B., Stuart, D.I., Stammers, D.K.

(2002) Proc Natl Acad Sci U S A 99: 14410-14415

• PubMed: 12386343 
• DOI: 10.1073/pnas.222366699
• Primary Citation of Related Structures:  
  1MU2


• PubMed Abstract: 
  

The HIV-2 serotype of HIV is a cause of disease in parts of the West African population, and there is evidence for its spread to Europe and Asia. HIV-2 reverse transcriptase (RT) demonstrates an intrinsic resistance to non-nucleoside RT inhibitors (NNRTIs), one of two classes of anti-AIDS drugs that target the viral RT. We report the crystal structure of HIV-2 RT to 2.35 A resolution, which reveals molecular details of the resistance to NNRTIs. HIV-2 RT has a similar overall fold to HIV-1 RT but has structural differences within the "NNRTI pocket" at both conserved and nonconserved residues. The structure points to the role of sequence differences that can give rise to unfavorable inhibitor contacts or destabilization of part of the binding pocket at positions 101, 106, 138, 181, 188, and 190. We also present evidence that the conformation of Ile-181 compared with the HIV-1 Tyr-181 could be a significant contributory factor to this inherent drug resistance of HIV-2 to NNRTIs. The availability of a refined structure of HIV-2 RT will provide a stimulus for the structure-based design of novel non-nucleoside inhibitors that could be used against HIV-2 infection.

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Related Citations: 

• Cloning, Expression, Purification, and Crystallisation of HIV-2 Reverse Transcriptase
  Bird, L.E., Chamberlain, P.P., Stewart-Jones, G.B., Ren, J., Stuart, D.I., Stammers, D.K.
  () To be published --: --

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Organizational Affiliation: 

Division of Structural Biology, The Wellcome Trust Centre for Human Genetics, The Henry Wellcome Building for Genomic Medicine, University of Oxford, Roosevelt Drive, Oxford OX3 7BN, United Kingdom.

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
HIV-2 RT	A	555	Human immunodeficiency virus 2	Mutation(s): 1  Gene Names: POL EC: 2.7.7.49 (PDB Primary Data), 3.4.23.47 (UniProt), 2.7.7.7 (UniProt), 3.1.26.13 (UniProt), 3.1.13.2 (UniProt), 2.7.7 (UniProt), 3.1 (UniProt)
UniProt
Find proteins for P04584 (Human immunodeficiency virus type 2 subtype A (isolate ROD)) Explore P04584  Go to UniProtKB:  P04584

Entity ID: 2
Molecule	Chains	Sequence Length	Organism	Details	Image
HIV-2 RT	B	426	Human immunodeficiency virus 2	Mutation(s): 1  Gene Names: POL EC: 2.7.7.49 (PDB Primary Data), 3.4.23.47 (UniProt), 2.7.7.7 (UniProt), 3.1.26.13 (UniProt), 3.1.13.2 (UniProt), 2.7.7 (UniProt), 3.1 (UniProt)
UniProt
Find proteins for P04584 (Human immunodeficiency virus type 2 subtype A (isolate ROD)) Explore P04584  Go to UniProtKB:  P04584

Small Molecules

Ligands 2 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
SO4	C [auth A], D [auth A], E [auth A], F [auth A], G [auth A], H [auth A], I [auth A], J [auth A], K [auth A], L [auth A], M [auth A], N [auth A], O [auth A], P [auth A], Q [auth A], S [auth B], T [auth B], U [auth B], V [auth B], W [auth B], X [auth B], Y [auth B]	SULFATE ION O4 S QAOWNCQODCNURD-UHFFFAOYSA-L
GOL	AA [auth B], BA [auth B], CA [auth B], R [auth A], Z [auth B]	GLYCEROL C3 H8 O3 PEDCQBHIVMGVHV-UHFFFAOYSA-N

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 2.35 Å
• R-Value Free: 0.240 
• R-Value Work: 0.192 
• Space Group: P 2₁ 2₁ 2₁

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 149.77	α = 90
b = 107.81	β = 90
c = 82.16	γ = 90

Software Package:

Software Name	Purpose
DENZO	data reduction
SCALEPACK	data scaling
CNS	refinement
CNS	phasing

Structure Validation

Entry History 

Deposition Data

• Deposited Date: 2002-09-23 
• Released Date: 2002-10-30 
Deposition Author(s): Ren, J., Bird, L.E., Chamberlain, P.P., Stewart-Jones, G.B., Stuart, D.I., Stammers, D.K.

Revision History  

• Version 1.0: 2002-10-30
  Type: Initial release
  
• Version 1.1: 2008-04-28
  Changes: Version format compliance
• Version 1.2: 2011-07-13
  Changes: Non-polymer description, Version format compliance
• Version 1.3: 2021-11-10
  Changes: Database references, Derived calculations