3KLH

Crystal structure of AZT-Resistant HIV-1 Reverse Transcriptase crosslinked to post-translocation AZTMP-Terminated DNA (COMPLEX P)

Structural Biology Knowledgebase: 3KLH SBKB.org


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.9 Å
  • R-Value Free: 0.294
  • R-Value Work: 0.260

wwPDB Validation Full Report


Literature

Macromolecules
Sequence Display for 3KLH

Classification: TRANSFERASE / DNA

Total Structure Weight: 178356.37


Macromolecule Entities
Molecule Chains Length Organism Details
Reverse transcriptase/ribonuclease H A 564 Human immunodeficiency virus 1 EC#: 2.7.7.49 IUBMB 2.7.7.7 IUBMB 3.1.26.4 IUBMB
Mutation: M41L, D67N, K70R, T215Y, K219Q, Q258C, C280S, F561V
Gene Name(s): gag-pol
p51 RT B 437 Human immunodeficiency virus 1 Mutation: C280S
Gene Name(s): gag-pol
monoclonal antibody, heavy chain C 211 Mus musculus
monoclonal antibody, light chain D 225 Mus musculus
Macromolecule Entities
Molecule Chains Length Organism Details
DNA (5'-D(*AP*T*GP*CP*TP*AP*GP*GP*CP*GP*CP*CP*CP*GP*AP*AP*CP*AP*GP*GP*GP*AP*CP*TP*GP*TP*G)-3') E 27 synthetic DNA template
DNA (5'-D(*AP*CP*AP*GP*TP*CP*CP*CP*TP*GP*TP*TP*CP*GP*GP*(MRG)P*CP*GP*CP*CP*(ATM))-3') F 21 synthetic DNA primer

Small Molecules
Ligands 1 Unique
ID Chains Name / Formula / InChI Key 2D Diagram 3D Interactions
MG
Query on MG

A MAGNESIUM ION
Mg
JLVVSXFLKOJNIY-UHFFFAOYSA-N
Ligand Explorer
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
Modified Residues 2 Unique
ID Chains Type Formula 2D Diagram Parent
MRG
Query on MRG
F DNA LINKING C13 H20 N5 O7 P S DG
ATM
Query on ATM
F DNA LINKING C10 H14 N5 O7 P DT

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.9 Å
  • R-Value Free: 0.294
  • R-Value Work: 0.260
  • Space Group: P 32 1 2
  • Electron Density Server: EDS EDS

Unit Cell:

Length (Å) Angle (°)
a = 166.47 α = 90.00
b = 166.47 β = 90.00
c = 220.82 γ = 120.00

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History

Deposition Data

  • Deposited Date: 2009-11-07
  • Released Date: 2010-09-22
  • Deposition author(s): Tu, X., Sarafianos, S.G., Arnold, E.

Revision History

  • 2013-09-18
    Type: Biological assembly | Details: --
  • 2011-07-13
    Type: Version format compliance | Details: compliance with PDB Exchange Dictionary V4