5TXM

STRUCTURE OF HIV-1 REVERSE TRANSCRIPTASE (RT) TERNARY COMPLEX WITH A DOUBLE STRANDED DNA AND AN INCOMING DDATP


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.7 Å
  • R-Value Free: 0.223
  • R-Value Work: 0.184

Literature

Macromolecules
Sequence Display for 5TXM

Classification: TRANSFERASE / DNA

Total Structure Weight: 260185.88


Macromolecule Entities
Molecule Chains Length Organism Details
HIV-1 Reverse Transcriptase P66 subunit A, C 557 Human immunodeficiency virus 1 EC#: 2.7.7.49 IUBMB
Mutation: Q258C, C280S, D498N
Gene Name(s): gag-pol
Metabolic Pathways
Maps:       
Reactions:
ESCHER  BiGG
HIV-1 Reverse Transcriptase P51 subunit B, D 428 Human immunodeficiency virus 1 EC#: 2.7.7.7 IUBMB
Mutation: C280S
Gene Name(s): gag-pol
Macromolecule Entities
Molecule Chains Length Organism Details
DNA (5'-D(*TP*GP*GP*TP*CP*GP*GP*CP*GP*CP*CP*CP*GP*AP*AP*CP*AP*GP*GP*GP*AP*CP*TP*G)-3') E, T 27 Human immunodeficiency virus 1
DNA (5'-D(*CP*AP*GP*TP*CP*CP*CP*TP*GP*TP*TP*CP*GP*GP*(MRG)P*CP*GP*CP*CP*G)-3') F, P 21 Human immunodeficiency virus 1

Small Molecules
Ligands 5 Unique
ID Chains Name / Formula / InChI Key 2D Diagram 3D Interactions
DDS
Query on DDS

A, C 2',3'-dideoxyadenosine triphosphate
C10 H16 N5 O11 P3
OAKPWEUQDVLTCN-NKWVEPMBSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
SUC
Query on SUC

B, D SUCROSE
C12 H22 O11
CZMRCDWAGMRECN-UGDNZRGBSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
SO4
Query on SO4

B SULFATE ION
O4 S
QAOWNCQODCNURD-UHFFFAOYSA-L
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
EDO
Query on EDO

A, B, D, T 1,2-ETHANEDIOL
ETHYLENE GLYCOL (Synonym)
C2 H6 O2
LYCAIKOWRPUZTN-UHFFFAOYSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
MG
Query on MG

A, C MAGNESIUM ION
Mg
JLVVSXFLKOJNIY-UHFFFAOYSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
Modified Residues 1 Unique
ID Chains Type Formula 2D Diagram Parent
MRG
Query on MRG
F, P DNA LINKING C13 H20 N5 O7 P S DG

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.7 Å
  • R-Value Free: 0.223
  • R-Value Work: 0.184
  • Space Group: P 1 21 1

Unit Cell:

Length (Å) Angle (°)
a = 90.34 α = 90.00
b = 133.95 β = 97.71
c = 139.40 γ = 90.00

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History

Deposition Data

  • Deposited Date: 2016-11-17
  • Released Date: 2017-04-05
  • Deposition author(s): Das, K., Martinez, S.M., Arnold, E.

Revision History

  • 2017-04-26
    Type: Database references
  • 2017-06-07
    Type: Database references
  • 2017-09-20
    Type: Author supporting evidence