1UDN

Crystal structure of the tRNA processing enzyme RNase PH from Aquifex aeolicus

Structural Biology Knowledgebase: 1UDN SBKB.org


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.3 Å
  • R-Value Free: 0.275
  • R-Value Work: 0.233

wwPDB Validation Full Report


Literature

Macromolecules
Sequence Display for 1UDN

Classification: transferase

Total Structure Weight: 28695.73

Macromolecule Entities
Molecule Chains Length Organism Details
Ribonuclease PH A 255 Aquifex aeolicus EC#: 2.7.7.56 IUBMB
Gene Name(s): rph rnpH aq_924
Metabolic Pathways
Maps:       
Reactions:
ESCHER  BiGG

Small Molecules
Ligands 2 Unique
ID Chains Name / Formula / InChI Key 2D Diagram 3D Interactions
SO4
Query on SO4

A SULFATE ION
O4 S
QAOWNCQODCNURD-UHFFFAOYSA-L
Ligand Explorer
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
PO4
Query on PO4

A PHOSPHATE ION
O4 P
NBIIXXVUZAFLBC-UHFFFAOYSA-K
Ligand Explorer
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.3 Å
  • R-Value Free: 0.275
  • R-Value Work: 0.233
  • Space Group: P 63 2 2

Unit Cell:

Length (Å) Angle (°)
a = 145.44 α = 90.00
b = 145.44 β = 90.00
c = 82.48 γ = 120.00

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History

Deposition Data

  • Deposited Date: 2003-05-02
  • Released Date: 2003-09-23
  • Deposition author(s): Ishii, R., Nureki, O., Yokoyama, S., RIKEN Structural Genomics/Proteomics Initiative (RSGI)

Revision History

  • 2011-07-13
    Type: Biological assembly | Details: Added software calculated values
  • 2011-07-13
    Type: Version format compliance | Details: compliance with PDB Exchange Dictionary V4