1RTD

STRUCTURE OF A CATALYTIC COMPLEX OF HIV-1 REVERSE TRANSCRIPTASE: IMPLICATIONS FOR NUCLEOSIDE ANALOG DRUG RESISTANCE

Structural Biology Knowledgebase: 1RTD SBKB.org


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 3.2 Å
  • R-Value Free: 0.298
  • R-Value Work: 0.224

wwPDB Validation Full Report


Literature

Macromolecules
Sequence Display for 1RTD

Classification: TRANSFERASE / DNA

Total Structure Weight: 261136.42


Macromolecule Entities
Molecule Chains Length Organism Details
PROTEIN (REVERSE TRANSCRIPTASE) A, C 554 Human immunodeficiency virus 1 EC#: 2.7.7.49 IUBMB
Fragment: P61
Mutation: P1K, K172R, Q258C, N471D, E478Q, K512E
Gene Name(s): gag-pol
Metabolic Pathways
Maps:       
Reactions:
ESCHER  BiGG
PROTEIN (REVERSE TRANSCRIPTASE) B, D 440 Human immunodeficiency virus 1 EC#: 2.7.7.49 IUBMB
Fragment: P50
Gene Name(s): gag-pol
Metabolic Pathways
Maps:       
Reactions:
ESCHER  BiGG
Macromolecule Entities
Molecule Chains Length Organism Details
DNA TEMPLATE FOR REVERSE TRANSCRIPTASE E, G 27 synthetic
DNA PRIMER FOR REVERSE TRANSCRIPTASE F, H 21 synthetic

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

A, C THYMIDINE-5'-TRIPHOSPHATE
C10 H17 N2 O14 P3
NHVNXKFIZYSCEB-XLPZGREQSA-N
Ligand Explorer
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
MG
Query on MG

A, C MAGNESIUM ION
Mg
JLVVSXFLKOJNIY-UHFFFAOYSA-N
Ligand Explorer
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
External Ligand Annotations
ID Binding Affinity (Sequence Identity %)
TTP Ki: 61 nM (98) BindingDB

N/A in BindingMoad
N/A in PDBbind

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 3.2 Å
  • R-Value Free: 0.298
  • R-Value Work: 0.224
  • Space Group: P 21 21 21

Unit Cell:

Length (Å) Angle (°)
a = 78.84 α = 90.00
b = 150.70 β = 90.00
c = 280.88 γ = 90.00

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History

Deposition Data

  • Deposited Date: 1998-08-26
  • Released Date: 1998-12-09
  • Deposition author(s): Chopra, R., Huang, H., Verdine, G.L., Harrison, S.C.

Revision History

  • 2011-07-13
    Type: Version format compliance | Details: compliance with PDB Exchange Dictionary V4