1K8W

Crystal structure of the E. coli pseudouridine synthase TruB bound to a T stem-loop RNA

Structural Biology Knowledgebase: 1K8W SBKB.org


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.85 Å
  • R-Value Free: 0.211
  • R-Value Work: 0.184

wwPDB Validation Full Report


Literature

Macromolecules
Sequence Display for 1K8W

Classification: LYASE / RNA

Total Structure Weight: 44661.73


Macromolecule Entities
Molecule Chains Length Organism Details
tRNA Pseudouridine Synthase B A 327 Escherichia coli EC#: 5.4.99.25 IUBMB
Fragment: Residues 10-314
Gene Name(s): truB yhbA b3166 JW3135
Macromolecule Entities
Molecule Chains Length Organism Details
5'-R(*GP*GP*CP*AP*AP*CP*GP*GP*UP*(FHU)P*CP*GP*AP*UP*CP*CP*CP*GP*UP*UP*GP*C)-3' B 22 synthetic T stem-loop RNA

Small Molecules
Ligands 1 Unique
ID Chains Name / Formula / InChI Key 2D Diagram 3D Interactions
SO4
Query on SO4

A, B SULFATE ION
O4 S
QAOWNCQODCNURD-UHFFFAOYSA-L
Ligand Explorer
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
Modified Residues 1 Unique
ID Chains Type Formula 2D Diagram Parent
FHU
Query on FHU
B RNA LINKING C9 H14 F N2 O10 P U

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.85 Å
  • R-Value Free: 0.211
  • R-Value Work: 0.184
  • Space Group: C 1 2 1
  • Electron Density Server: EDS EDS

Unit Cell:

Length (Å) Angle (°)
a = 145.05 α = 90.00
b = 40.36 β = 110.60
c = 77.99 γ = 90.00

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History

Deposition Data

  • Deposited Date: 2001-10-25
  • Released Date: 2001-12-31
  • Deposition author(s): Hoang, C., Ferre-D'Amare, A.R.

Revision History

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