1JBR

Crystal Structure of the Ribotoxin Restrictocin and a 31-mer SRD RNA Inhibitor

Structural Biology Knowledgebase: 1JBR SBKB.org


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.15 Å
  • R-Value Free: 0.290
  • R-Value Work: 0.232

wwPDB Validation Full Report


Literature

Macromolecules
Sequence Display for 1JBR

Classification: HYDROLASE / RNA

Total Structure Weight: 54046.73


Macromolecule Entities
Molecule Chains Length Organism Details
Restrictocin A, B 149 Aspergillus restrictus EC#: 3.1.27 IUBMB
Gene Name(s): ret
Macromolecule Entities
Molecule Chains Length Organism Details
5'-R(*GP*CP*GP*CP*UP*CP*CP*UP*CP*AP*GP*UP*AP*CP*GP*AP*GP*(A23))-3' C 18 synthetic
5'-R(*GP*GP*AP*AP*CP*CP*GP*GP*AP*GP*CP*GP*C)-3' F 13 synthetic
31-mer SRD RNA analog D 31 synthetic

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

C, D, F POTASSIUM ION
K
NPYPAHLBTDXSSS-UHFFFAOYSA-N
Ligand Explorer
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
Modified Residues 1 Unique
ID Chains Type Formula 2D Diagram Parent
A23
Query on A23
C RNA LINKING C10 H13 N5 O9 P2 A

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.15 Å
  • R-Value Free: 0.290
  • R-Value Work: 0.232
  • Space Group: P 1 21 1
  • Electron Density Server: EDS EDS

Unit Cell:

Length (Å) Angle (°)
a = 60.40 α = 90.00
b = 109.70 β = 97.80
c = 40.00 γ = 90.00

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History

Deposition Data

  • Deposited Date: 2001-06-06
  • Released Date: 2001-10-26
  • Deposition author(s): Yang, X., Gerczei, T., Glover, L., Correll, C.C.

Revision History

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