Biological Assembly 1  

 3D View: Structure | Electron Density | Ligand Interaction

Global Symmetry: Asymmetric - C1 
Global Stoichiometry: Monomer - A1 

Biological assembly 1 assigned by authors.

Macromolecule Content

• Total Structure Weight: 26.48 kDa 
• Atom Count: 2017 
• Residue Count: 234 
• Unique protein chains: 1

1KSL

STRUCTURE OF RSUA

• DOI: 10.2210/pdb1KSL/pdb

• Classification: LYASE
• Organism(s): Escherichia coli
• Expression System: Escherichia coli
• Mutation(s): Yes 


• Deposited: 2002-01-13 Released: 2002-04-24 
• Deposition Author(s): Sivaraman, J., Sauve, V., Larocque, R., Stura, E.A., Schrag, J.D., Cygler, M., Matte, A., Montreal-Kingston Bacterial Structural Genomics Initiative (BSGI)

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 2.10 Å
• R-Value Free: 0.258 
• R-Value Work: 0.226 

Literature

Structure of the 16S rRNA pseudouridine synthase RsuA bound to uracil and UMP.

Sivaraman, J., Sauve, V., Larocque, R., Stura, E.A., Schrag, J.D., Cygler, M., Matte, A.

(2002) Nat Struct Biol 9: 353-358

• PubMed: 11953756 
• DOI: 10.1038/nsb788
• Primary Citation of Related Structures:  
  1KSL, 1KSK, 1KSV


• PubMed Abstract: 
  

In Escherichia coli, the pseudouridine synthase RsuA catalyzes formation of pseudouridine (psi) at position 516 in 16S rRNA during assembly of the 30S ribosomal subunit. We have determined the crystal structure of RsuA bound to uracil at 2.0 A resolution and to uridine 5'-monophosphate (UMP) at 2.65 A resolution. RsuA consists of an N-terminal domain connected by an extended linker to the central and C-terminal domains. Uracil and UMP bind in a cleft between the central and C-terminal domains near the catalytic residue Asp 102. The N-terminal domain shows structural similarity to the ribosomal protein S4. Despite only 15% amino acid identity, the other two domains are structurally similar to those of the tRNA-specific psi-synthase TruA, including the position of the catalytic Asp. Our results suggest that all four families of pseudouridine synthases share the same fold of their catalytic domain(s) and uracil-binding site.

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Organizational Affiliation: 

Biotechnology Research Institute, 6100 Royalmount Avenue, Montreal, Quebec H4P 2R2, Canada.

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
RIBOSOMAL SMALL SUBUNIT PSEUDOURIDINE SYNTHASE A	A	234	Escherichia coli	Mutation(s): 4  EC: 4.2.1.70 (PDB Primary Data), 5.4.99.19 (UniProt)
Find proteins for P0AA43 (Escherichia coli (strain K12)) Explore P0AA43  Go to UniProtKB:  P0AA43

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
URA	A	URACIL C4 H4 N2 O2 ISAKRJDGNUQOIC-UHFFFAOYSA-N

Modified Residues  1 Unique
ID	Chains	Type	Formula	2D Diagram	Parent
MSE	A	L-PEPTIDE LINKING	C5 H11 N O2 Se		MET

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 2.10 Å
• R-Value Free: 0.258 
• R-Value Work: 0.226 
• Space Group: P 2₁ 2₁ 2

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 48.495	α = 90
b = 154.646	β = 90
c = 35.187	γ = 90

Software Package:

Software Name	Purpose
CNS	refinement
Adxv	data processing
HKL-2000	data scaling
CNS	phasing

Structure Validation

Entry History 

Deposition Data

• Deposited Date: 2002-01-13 
• Released Date: 2002-04-24 
Deposition Author(s): Sivaraman, J., Sauve, V., Larocque, R., Stura, E.A., Schrag, J.D., Cygler, M., Matte, A., Montreal-Kingston Bacterial Structural Genomics Initiative (BSGI)

Revision History 

• Version 1.0: 2002-04-24
  Type: Initial release
  
• Version 1.1: 2008-04-27
  Changes: Version format compliance
• Version 1.2: 2011-07-13
  Changes: Version format compliance
• Version 1.3: 2017-10-11
  Changes: Refinement description
• Version 1.4: 2018-01-31
  Changes: Experimental preparation