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HIV-1 reverse transcriptase crosslinked to template-primer with tenofovir-diphosphate bound as the incoming nucleotide substrate
DOI:10.2210/pdb1t05/pdb   NDB ID: PD0537
1T05
Primary Citation
 
 
  •   Molecular Description Hide
    Classification: Transferase/dna
    Structure Weight: 131188.62
    Molecule: oligonucleotide template
    Polymer: 1 Type: dna Length: 27
    Chains: T
    Molecule: oligonucleotide primer
    Polymer: 2 Type: dna Length: 21
    Chains: P
    Molecule: POL polyprotein
    Polymer: 3 Type: protein Length: 558
    Chains: A
    EC#: 2.7.7.49    2.7.7.7    3.1.26.13   
    Fragment: HIV-1 reverse transcriptase p66 subunit
    Mutation: Q258C, C280S
    Organism: Human immunodeficiency virus 1
    Gene Name: gag-pol
    UniProtKB: Protein Feature View | Search PDB | P03366  
    Molecule: POL polyprotein
    Polymer: 4 Type: protein Length: 437
    Chains: B
    EC#: 2.7.7.49    2.7.7.7    3.1.26.13   
    Fragment: HIV-1 reverse transcriptase p51 subunit
    Mutation: C280S
    Organism: Human immunodeficiency virus 1
    Gene Name: gag-pol
    UniProtKB: Protein Feature View | Search PDB | P04585  
     
  •   Structure Validation Hide

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  • MolProbity Ramachandran Plot
     

  •   Related Citations in PDB Entry (REMARK 1) Hide
     
  •   Source Hide
    Polymer: 1
    Scientific Name: Synthetic construct   Taxonomy    
    Polymer: 2
    Scientific Name: Synthetic construct   Taxonomy    
    Polymer: 3
    Scientific Name: Human immunodeficiency virus 1   Taxonomy   Expression System: Escherichia coli  
    Polymer: 4
    Scientific Name: Human immunodeficiency virus 1   Taxonomy   Expression System: Escherichia coli  
     
  •   Related PDB Entries Hide
    Identifier Details
    1RTD  Structure of a catalytic complex of HIV-1 reverse transcriptase: Implications for nucleoside analog resistance 
    1T03  HIV-1 reverse transcriptase crosslinked to tenofovir terminated template-primer (complex P) 
     
  •   Ligand Chemical Component Hide
    Identifier Formula Name View Interactions
    GOL
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    GOL C3 H8 O3
    GLYCEROL
    MG
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    MG Mg
    MAGNESIUM ION
    TNV
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    TNV C9 H16 N5 O10 P3
    [2-(6-AMINO-9H-PURIN-9-YL)-1-METHYLETHOXY]METHYL- TRIPHOSPHATE
    TNV:1T05
     
  •   Modified Residues Hide
    Identifier Formula Parent Type
    MRG
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    MRG C13 H20 N5 O7 P S DG dnaLinking
    DDG
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    DDG C10 H14 N5 O6 P DG dnaLinking
     
  •   External Domain Annotations Hide
     
  •   Structural Biology Knowledgebase Data Hide
     
  • Nucleic Acid Database Hide
    View the NDB ID associated with this structure: PD0537
     
 
Data in orange boxes are gathered from external resources (when available).
 
  Biological Assembly       
Biological assembly 1 assigned by authors
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  •   Deposition Summary Hide
    Authors:   Tuske, S.,  Sarafianos, S.G.,  Ding, J.,  Arnold, E.

    Deposition:   2004-04-07
    Release:   2004-05-11
    Last Modified (REVDAT):   2011-07-13
     
  •   Revision History    Hide
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    2011-07-13
    Version format compliance
    2011-07-13
    Non-polymer description
     
  •   Experimental Details Hide
    Method:   X-RAY DIFFRACTION
    Exp. Data:
      Structure Factors
    EDS  
    Resolution[Å]:   3.00
    R-Value: 0.253 (work)
    R-Free: 0.292
    Space Group: P 31 1 2
    Unit Cell:
      Length [Å] Angles [°]
    a = 171.57 α = 90.00 
    b = 171.57 β = 90.00 
    c = 156.27 γ = 120.00