2VNU

Crystal structure of Sc Rrp44


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.3 Å
  • R-Value Free: 0.278
  • R-Value Work: 0.217

Literature

Macromolecules
Sequence Display for 2VNU

Classification: HYDROLASE / RNA

Total Structure Weight: 90572.60


Macromolecule Entities
Molecule Chains Length Organism Details
EXOSOME COMPLEX EXONUCLEASE RRP44 D 760 Saccharomyces cerevisiae EC#: 3.1.13 IUBMB 3.1.26 IUBMB
Fragment: RESIDUES 242-1001
Mutation: D551N
Gene Name(s): DIS3 Gene View RRP44 YOL021C O2197
Metabolic Pathways
Maps:       
Reactions:
ESCHER  BiGG
Macromolecule Entities
Molecule Chains Length Organism Details
5'-R(*AP*AP*AP*AP*AP*AP*AP*AP*AP*AP)-3' B 10 Saccharomyces cerevisiae

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

D PENTAETHYLENE GLYCOL
PEG400 (Synonym)
C10 H22 O6
JLFNLZLINWHATN-UHFFFAOYSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
MG
Query on MG

D MAGNESIUM ION
Mg
JLVVSXFLKOJNIY-UHFFFAOYSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
NA
Query on NA

D SODIUM ION
Na
FKNQFGJONOIPTF-UHFFFAOYSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
Modified Residues 1 Unique
ID Chains Type Formula 2D Diagram Parent
MSE
Query on MSE
D L-PEPTIDE LINKING C5 H11 N O2 Se MET

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.3 Å
  • R-Value Free: 0.278
  • R-Value Work: 0.217
  • Space Group: P 21 21 21

Unit Cell:

Length (Å) Angle (°)
a = 72.35 α = 90.00
b = 87.25 β = 90.00
c = 136.27 γ = 90.00

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History

Deposition Data

  • Deposited Date: 2008-02-07
  • Released Date: 2008-04-08
  • Deposition author(s): Lorentzen, E., Basquin, J., Conti, E.

Revision History

  • Version 1_0: 2008-04-08

    Type: Initial release

  • Version 1_1: 2011-07-13

    Type: Refinement description, Version format compliance