1Y0Q

Crystal structure of an active group I ribozyme-product complex

Structural Biology Knowledgebase: 1Y0Q SBKB.org


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 3.6 Å
  • R-Value Free: 0.310
  • R-Value Work: 0.277

wwPDB Validation Full Report


Literature

Macromolecules
Sequence Display for 1Y0Q

Classification: RNA

Total Structure Weight: 75550.92

Macromolecule Entities
Molecule Chains Length Organism Details
Group I ribozyme A 229 Staphylococcus phage twort
5'-R(*GP*CP*UP*U)-3' B 4 synthetic

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

A SPERMINE (FULLY PROTONATED FORM)
C10 H30 N4
PFNFFQXMRSDOHW-UHFFFAOYSA-R
Ligand Explorer
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
SO4
Query on SO4

A SULFATE ION
O4 S
QAOWNCQODCNURD-UHFFFAOYSA-L
Ligand Explorer
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
MG
Query on MG

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

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 3.6 Å
  • R-Value Free: 0.310
  • R-Value Work: 0.277
  • Space Group: I 21 21 21
  • Electron Density Server: EDS EDS

Unit Cell:

Length (Å) Angle (°)
a = 94.57 α = 90.00
b = 140.97 β = 90.00
c = 210.85 γ = 90.00

Structure Validation

View Full Validation Report



Entry History

Deposition Data

  • Deposited Date: 2004-11-16
  • Released Date: 2004-12-21
  • Deposition author(s): Golden, B.L., Kim, H., Chase, E.

Revision History

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