1MJI

DETAILED ANALYSIS OF RNA-PROTEIN INTERACTIONS WITHIN THE BACTERIAL RIBOSOMAL PROTEIN L5/5S RRNA COMPLEX

Structural Biology Knowledgebase: 1MJI SBKB.org


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.5 Å
  • R-Value Free: 0.288
  • R-Value Work: 0.210

wwPDB Validation Full Report


Literature

Macromolecules
Sequence Display for 1MJI

Classification: RIBOSOME

Total Structure Weight: 64181.81


Macromolecule Entities
Molecule Chains Length Organism Details
50S ribosomal protein L5 A, B 182 Thermus thermophilus Mutation: M99M, M155M
Gene Name(s): rplE rpl5
Macromolecule Entities
Molecule Chains Length Organism Details
5S rRNA fragment C, D 34 Escherichia coli

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

C, D POTASSIUM ION
K
NPYPAHLBTDXSSS-UHFFFAOYSA-N
Ligand Explorer
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
MG
Query on MG

A, B, C, D MAGNESIUM ION
Mg
JLVVSXFLKOJNIY-UHFFFAOYSA-N
Ligand Explorer
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
Modified Residues 1 Unique
ID Chains Type Formula 2D Diagram Parent
MSE
Query on MSE
A, B L-PEPTIDE LINKING C5 H11 N O2 Se MET

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.5 Å
  • R-Value Free: 0.288
  • R-Value Work: 0.210
  • Space Group: P 1 21 1
  • Electron Density Server: EDS EDS

Unit Cell:

Length (Å) Angle (°)
a = 51.89 α = 90.00
b = 99.60 β = 100.05
c = 65.73 γ = 90.00

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History

Deposition Data

  • Deposited Date: 2002-08-28
  • Released Date: 2003-01-21
  • Deposition author(s): Perederina, A., Nevskaya, N., Nikonov, O., Nikulin, A., Dumas, P., Yao, M., Tanaka, I., Garber, M., Gongadze, G., Nikonov, S.

Revision History

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