Biological Assembly 1  

 3D View: Structure | 1D-3D View | Electron Density | Validation Report | Ligand Interaction

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

Biological assembly 1 assigned by authors.

Macromolecule Content

• Total Structure Weight: 33.36 kDa 
• Atom Count: 2413 
• Modelled Residue Count: 269 
• Deposited Residue Count: 282 
• Unique protein chains: 1

1TQM

Crystal Structure of A. fulgidus Rio2 Serine Protein Kinase Bound to AMPPNP

• PDB DOI: 10.2210/pdb1TQM/pdb

• Classification: RIBOSOME
• Organism(s): Archaeoglobus fulgidus DSM 4304
• Expression System: Escherichia coli
• Mutation(s): No 


• Deposited: 2004-06-17 Released: 2004-09-28 
• Deposition Author(s): LaRonde-LeBlanc, N., Wlodawer, A.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 1.99 Å
• R-Value Free: 0.228 
• R-Value Work: 0.171 
• R-Value Observed: 0.174 

Literature

Crystal Structure of A. fulgidus Rio2 Defines a New Family of Serine Protein Kinases

LaRonde-LeBlanc, N., Wlodawer, A.

(2004) Structure 12: 1585-1594

• PubMed: 15341724 
• DOI: 10.1016/j.str.2004.06.016
• Primary Citation of Related Structures:  
  1TQI, 1TQM, 1TQP


• PubMed Abstract: 
  

The RIO family of atypical serine/threonine kinases contains two subfamilies, Rio1 and Rio2, highly conserved from archaea to man. Both RIO proteins from Saccharomyces cerevisiae catalyze serine phosphorylation in vitro, and the presence of conserved catalytic residues is required for cell viability. The activity of Rio2 is necessary for rRNA cleavage in 40S ribosomal subunit maturation. We solved the X-ray crystal structure of Archaeoglobus fulgidus Rio2, with and without bound nucleotides, at 2.0 A resolution. The C-terminal RIO domain is indeed structurally homologous to protein kinases, although it differs from known serine kinases in ATP binding and lacks the regions important for substrate binding. Unexpectedly, the N-terminal Rio2-specific domain contains a winged helix fold, seen primarily in DNA-binding proteins. These discoveries have implications in determining the target and function of RIO proteins and define a distinct new family of protein kinases.

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Organizational Affiliation: 

Protein Structure Section, Macromolecular Crystallography Laboratory, National Cancer Institute, NCI-Frederick, MD 21702, USA.

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
conserved hypothetical protein	A	282	Archaeoglobus fulgidus DSM 4304	Mutation(s): 0  Gene Names: rio2, AF_2426 EC: 2.7.11.1
UniProt
Find proteins for O30245 (Archaeoglobus fulgidus (strain ATCC 49558 / DSM 4304 / JCM 9628 / NBRC 100126 / VC-16)) Explore O30245  Go to UniProtKB:  O30245

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
ANP	B [auth A]	PHOSPHOAMINOPHOSPHONIC ACID-ADENYLATE ESTER C10 H17 N6 O12 P3 PVKSNHVPLWYQGJ-KQYNXXCUSA-N

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 1.99 Å
• R-Value Free: 0.228 
• R-Value Work: 0.171 
• R-Value Observed: 0.174 
• Space Group: C 1 2 1

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 116.165	α = 90
b = 44.259	β = 94.38
c = 62.097	γ = 90

Software Package:

Software Name	Purpose
REFMAC	refinement
HKL-2000	data reduction
SCALEPACK	data scaling
SHARP	phasing

Structure Validation

Entry History 

Deposition Data

• Deposited Date: 2004-06-17 
• Released Date: 2004-09-28 
Deposition Author(s): LaRonde-LeBlanc, N., Wlodawer, A.

Revision History  

• Version 1.0: 2004-09-28
  Type: Initial release
  
• Version 1.1: 2008-04-30
  Changes: Version format compliance
• Version 1.2: 2011-07-13
  Changes: Source and taxonomy, Version format compliance