5HLF

STRUCTURE OF HIV-1 REVERSE TRANSCRIPTASE In COMPLEX WITH A 38-MER HAIRPIN TEMPLATE-PRIMER DNA APTAMER AND AN ALPHA-CARBOXYPHOSPHONATE INHIBITOR


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.95 Å
  • R-Value Free: 0.257
  • R-Value Work: 0.208

Literature

Macromolecules
Sequence Display for 5HLF

Classification: TRANSFERASE / INHIBITOR / DNA

Total Structure Weight: 257379.48


Macromolecule Entities
Molecule Chains Length Organism Details
HIV-1 REVERSE TRANSCRIPTASE P66 SUBUNIT A, C 555 Human immunodeficiency virus 1 EC#: 2.7.7.49 IUBMB
Mutation: C280S
Gene Name(s): gag-pol
Metabolic Pathways
Maps:       
Reactions:
ESCHER  BiGG
HIV-1 REVERSE TRANSCRIPTASE P51 SUBUNIT B, D 444 Human immunodeficiency virus 1 EC#: 2.7.7.49 IUBMB
Mutation: C280S
Gene Name(s): gag-pol
Macromolecule Entities
Molecule Chains Length Organism Details
DNA (38-MER) E, F 38 Synthetic construct

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

B, D SUCROSE
C12 H22 O11
CZMRCDWAGMRECN-UGDNZRGBSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
64A
Query on 64A

A {[(1S,3R)-3-(5-methyl-2,4-dioxo-3,4-dihydropyrimidin- 1(2H)-yl)cyclopentyl]oxy}propanedioic acid
C13 H16 N2 O7
LBUPGXBDONMGHG-SFYZADRCSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
SO4
Query on SO4

A, C SULFATE ION
O4 S
QAOWNCQODCNURD-UHFFFAOYSA-L
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
GOL
Query on GOL

A, B, C, D GLYCEROL
2, (Synonym)
C3 H8 O3
PEDCQBHIVMGVHV-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
OMC
Query on OMC
E, F RNA LINKING C10 H16 N3 O8 P C

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.95 Å
  • R-Value Free: 0.257
  • R-Value Work: 0.208
  • Space Group: P 1 21 1

Unit Cell:

Length (Å) Angle (°)
a = 90.06 α = 90.00
b = 128.56 β = 101.46
c = 132.41 γ = 90.00

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History

Deposition Data

  • Deposited Date: 2016-01-15
  • Released Date: 2016-02-10
  • Deposition author(s): Das, K., Arnold, E.

Revision History

  • Version 1_0: 2016-02-10

    Type: Initial release

  • Version 1_1: 2016-03-02

    Type: Database references

  • Version 1_2: 2017-09-20

    Type: Author supporting evidence, Derived calculations