1DFU

CRYSTAL STRUCTURE OF E.COLI RIBOSOMAL PROTEIN L25 COMPLEXED WITH A 5S RRNA FRAGMENT AT 1.8 A RESOLUTION

Structural Biology Knowledgebase: 1DFU SBKB.org


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.8 Å
  • R-Value Free: 0.225
  • R-Value Work: 0.207

wwPDB Validation Full Report


Literature

Macromolecules
Sequence Display for 1DFU

Classification: RIBOSOME

Total Structure Weight: 23197.63


Macromolecule Entities
Molecule Chains Length Organism Details
RIBOSOMAL PROTEIN L25 P 94 Escherichia coli Details: PROTEIN FROM THE LARGE RIBOSOMAL SUBUNIT
Gene Name(s): rplY b2185 JW2173
Macromolecule Entities
Molecule Chains Length Organism Details
5S RRNA M 19 synthetic A FRAGMENT OF 5S RRNA IN 50S RIBOSOMAL SUBUNIT
5S RRNA N 19 synthetic A FRAGMENT OF 5S RRNA IN 50S RIBOSOMAL SUBUNIT

Small Molecules
Ligands 1 Unique
ID Chains Name / Formula / InChI Key 2D Diagram 3D Interactions
MG
Query on MG

M, N MAGNESIUM ION
Mg
JLVVSXFLKOJNIY-UHFFFAOYSA-N
Ligand Explorer
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.8 Å
  • R-Value Free: 0.225
  • R-Value Work: 0.207
  • Space Group: C 2 2 21

Unit Cell:

Length (Å) Angle (°)
a = 75.60 α = 90.00
b = 76.60 β = 90.00
c = 95.10 γ = 90.00

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History

Deposition Data

  • Deposited Date: 1999-11-21
  • Released Date: 1999-12-02
  • Deposition author(s): Lu, M., Steitz, T.A.

Revision History

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