4MDX

Crystal structure of Bacillus subtilis MazF in complex with RNA

Structural Biology Knowledgebase: 4MDX SBKB.org


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.5 Å
  • R-Value Free: 0.178
  • R-Value Work: 0.164

wwPDB Validation Full Report


Literature

Macromolecules
Sequence Display for 4MDX

Classification: HYDROLASE / RNA

Total Structure Weight: 29732.43


Macromolecule Entities
Molecule Chains Length Organism Details
mRNA interferase EndoA A, B 117 Bacillus subtilis EC#: 3.1.27 IUBMB
Gene Name(s): ndoA mazF ydcE BSU04660
Metabolic Pathways
Maps:       
Reactions:
ESCHER  BiGG
Macromolecule Entities
Molecule Chains Length Organism Details
RNA, mRNA C 9 synthetic

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

A, B, C IODIDE ION
I
XMBWDFGMSWQBCA-UHFFFAOYSA-M
Ligand Explorer
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
NA
Query on NA

A SODIUM ION
Na
FKNQFGJONOIPTF-UHFFFAOYSA-N
Ligand Explorer
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.5 Å
  • R-Value Free: 0.178
  • R-Value Work: 0.164
  • Space Group: P 21 21 21
  • Electron Density Server: EDS EDS

Unit Cell:

Length (Å) Angle (°)
a = 66.79 α = 90.00
b = 69.89 β = 90.00
c = 79.21 γ = 90.00

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History

Deposition Data

  • Deposited Date: 2013-08-23
  • Released Date: 2013-10-23
  • Deposition author(s): Simanshu, D.K., Patel, D.J.

Revision History

  • 2013-11-27
    Type: Citation | Details: Citation update
  • 2013-10-30
    Type: Citation | Details: Citation update