2FC3

Crystal structure of the extremely thermostable Aeropyrum pernix L7Ae multifunctional protein

• PDB DOI:  https://doi.org/10.2210/pdb2FC3/pdb

• Classification: RIBOSOME, RNA BINDING PROTEIN
• Organism(s): Aeropyrum pernix
• Expression System: Escherichia coli
• Mutation(s): No 


• Deposited: 2005-12-11 Released: 2006-11-28 
• Deposition Author(s): Brown II, B.A., Suryadi, J., Zhou, Z., Gupton Jr., T.B., Flowers, S.L.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 1.56 Å
• R-Value Free: 0.226 
• R-Value Work: 0.174 
• R-Value Observed: 0.177 

Literature

Structure of the Aeropyrum pernix L7Ae multifunctional protein and insight into its extreme thermostability.

Bhuiya, M.W., Suryadi, J., Zhou, Z., Brown, B.A.

(2013) Acta Crystallogr Sect F Struct Biol Cryst Commun 69: 979-988

• PubMed: 23989144 
• DOI: https://doi.org/10.1107/S1744309113021799
• Primary Citation of Related Structures:  
  2FC3


• PubMed Abstract: 
  

  Archaeal ribosomal protein L7Ae is a multifunctional RNA-binding protein that directs post-transcriptional modification of archaeal RNAs. The L7Ae protein from Aeropyrum pernix (Ap L7Ae), a member of the Crenarchaea, was found to have an extremely high melting temperature (>383 K). The crystal structure of Ap L7Ae has been determined to a resolution of 1.56 Å. The structure of Ap L7Ae was compared with the structures of two homologs: hyperthermophilic Methanocaldococcus jannaschii L7Ae and the mesophilic counterpart mammalian 15.5 kD protein. The primary stabilizing feature in the Ap L7Ae protein appears to be the large number of ion pairs and extensive ion-pair network that connects secondary-structural elements. To our knowledge, Ap L7Ae is among the most thermostable single-domain monomeric proteins presently observed.

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Organizational Affiliation: 

Conagen Inc., Saint Louis, MO 63132, USA. [e-mail]

Biological Assembly 1  

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

Biological assembly 1 assigned by authors.

Macromolecule Content

• Total Structure Weight: 13.63 kDa 
• Atom Count: 1,076 
• Modelled Residue Count: 124 
• Deposited Residue Count: 124 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
50S ribosomal protein L7Ae	A	124	Aeropyrum pernix	Mutation(s): 0  Gene Names: rpl7ae
UniProt
Find proteins for Q9YAX7 (Aeropyrum pernix (strain ATCC 700893 / DSM 11879 / JCM 9820 / NBRC 100138 / K1)) Explore Q9YAX7  Go to UniProtKB:  Q9YAX7

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 1.56 Å
• R-Value Free: 0.226 
• R-Value Work: 0.174 
• R-Value Observed: 0.177 
• Space Group: P 2₁ 2₁ 2₁

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 35.054	α = 90
b = 49.188	β = 90
c = 65.048	γ = 90

Software Package:

Software Name	Purpose
DENZO	data reduction
SCALEPACK	data scaling
EPMR	phasing
REFMAC	refinement
PDB_EXTRACT	data extraction
CrystalClear	data reduction
CrystalClear	data scaling

Structure Validation

Entry History 

Deposition Data

• Released Date: 2006-11-28 
Deposition Author(s): Brown II, B.A., Suryadi, J., Zhou, Z., Gupton Jr., T.B., Flowers, S.L.

Revision History  

• Version 1.0: 2006-11-28
  Type: Initial release
  
• Version 1.1: 2008-04-01
  Changes: Version format compliance
• Version 1.2: 2011-07-13
  Changes: Version format compliance
• Version 1.3: 2013-09-11
  Changes: Database references
• Version 1.4: 2017-10-18
  Changes: Refinement description
• Version 1.5: 2023-08-30
  Changes: Data collection, Database references, Refinement description