3R8F

Replication initiator DnaA bound to AMPPCP and single-stranded DNA


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 3.37 Å
  • R-Value Free: 0.268
  • R-Value Work: 0.249

Literature

Macromolecules
Sequence Display for 3R8F

Classification: REPLICATION ACTIVATOR / DNA

Total Structure Weight: 157280.98


Macromolecule Entities
Molecule Chains Length Organism Details
Chromosomal replication initiator protein dnaA A, B, C, D 324 Aquifex aeolicus Fragment: UNP residues 76-399
Gene Name(s): dnaA aq_322
Metabolic Pathways
Maps:       
Reactions:
ESCHER  BiGG
Macromolecule Entities
Molecule Chains Length Organism Details
5'-D(P*AP*AP*AP*AP*AP*AP*AP*AP*AP*AP*AP*A)-3' E 12 synthetic

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

A, B, C, D PHOSPHOMETHYLPHOSPHONIC ACID ADENYLATE ESTER
ADENOSINE-5'-[BETA, GAMMA-METHYLENE]TRIPHOSPHATE (Synonym)
C11 H18 N5 O12 P3
UFZTZBNSLXELAL-IOSLPCCCSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
MG
Query on MG

A, B, C, D MAGNESIUM ION
Mg
JLVVSXFLKOJNIY-UHFFFAOYSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 3.37 Å
  • R-Value Free: 0.268
  • R-Value Work: 0.249
  • Space Group: P 21 21 21

Unit Cell:

Length (Å) Angle (°)
a = 99.80 α = 90.00
b = 114.22 β = 90.00
c = 201.27 γ = 90.00

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History

Deposition Data

  • Deposited Date: 2011-03-23
  • Released Date: 2011-09-28
  • Deposition author(s): Duderstadt, K.E., Chuang, K., Berger, J.M.

Revision History

  • 2015-09-09
    Type: Entry title | Details: Updated title
  • 2012-03-28
    Type: Citation | Details: Citation update
  • 2012-02-22
    Type: Non-polymer description | Details: Renamed ligand
  • 2012-02-22
    Type: Refinement description | Details: Corrected TLS range syntax
  • 2011-10-19
    Type: Citation | Details: citation update