Biological Assembly 1  

 3D View: Structure | Electron Density

Standalone Viewers  
Protein Workshop | Ligand Explorer

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

Biological assembly 1 assigned by authors.

Biological Assembly 2  

 3D View: Structure | Electron Density

Standalone Viewers  
Protein Workshop | Ligand Explorer

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

Biological assembly 2 assigned by authors.

Macromolecule Content

• Total Structure Weight: 43083.79 
• Atom Count: 2852 
• Residue Count: 288 
• Unique protein chains: 1
• Unique nucleic acid chains: 1

1RLG

Molecular basis of Box C/D RNA-protein interaction: co-crystal structure of the Archaeal sRNP intiation complex

• DOI: 10.2210/pdb1RLG/pdb
• NDB: PR0108

• Classification: Structural Protein/RNA
• Organism(s): Archaeoglobus fulgidus (strain ATCC 49558 / VC-16 / DSM 4304 / JCM 9628 / NBRC 100126)
• Expression System: Escherichia coli BL21


• Deposited: 2003-11-25 Released: 2004-06-01 
• Deposition Author(s): Moore, T., Zhang, Y., Fenley, M.O., Li, H.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 2.7 Å
• R-Value Free: 0.260 
• R-Value Work: 0.235 

Literature

Molecular Basis of Box C/D RNA-Protein Interactions; Cocrystal Structure of Archaeal L7Ae and a Box C/D RNA.

Moore, T., Zhang, Y., Fenley, M.O., Li, H.

(2004) STRUCTURE 12: 807-818

• PubMed: 15130473 
• DOI: 10.1016/j.str.2004.02.033


• PubMed Abstract: 
  

We have determined and refined a crystal structure of the initial assembly complex of archaeal box C/D sRNPs comprising the Archaeoglobus fulgidus (AF) L7Ae protein and a box C/D RNA. The box C/D RNA forms a classical kink-turn (K-turn) structure and the resulting protein-RNA complex serves as a distinct platform for recruitment of the fibrillarin-Nop5p complex. The cocrystal structure confirms previously proposed secondary structure of the box C/D RNA that includes a protruded U, a UU mismatch, and two sheared tandem GA base pairs. Detailed structural comparisons of the AF L7Ae-box C/D RNA complex with previously determined crystal structures of L7Ae homologs in complex with functionally distinct K-turn RNAs revealed a set of remarkably conserved principles in protein-RNA interactions. These analyses provide a structural basis for interpreting the functional roles of the box C/D sequences in directing specific assembly of box C/D sRNPs.

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Organizational Affiliation: 

Department of Chemistry and Biochemistry, Florida State University, Tallahassee, FL 32306, USA.

Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 2
Molecule	Chains	Sequence Length	Organism	Details
50S ribosomal protein L7Ae	A, B	119	Archaeoglobus fulgidus (strain ATCC 49558 / VC-16 / DSM 4304 / JCM 9628 / NBRC 100126)	Mutation(s): 0  Gene Names: rpl7ae
Find proteins for O29494 (Archaeoglobus fulgidus (strain ATCC 49558 / VC-16 / DSM 4304 / JCM 9628 / NBRC 100126)) Go to UniProtKB:  O29494

Entity ID: 1
Molecule	Chains	Length	Organism
25-MER	C,D	25	N/A

Small Molecules

Modified Residues  1 Unique
ID	Chains	Type	Formula	2D Diagram	Parent
5BU	C, D	RNA LINKING	C9 H12 Br N2 O9 P		U

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 2.7 Å
• R-Value Free: 0.260 
• R-Value Work: 0.235 
• Space Group: P 2 3

Unit Cell:

Length (Å)	Angle (°)
a = 120.584	α = 90.00
b = 120.584	β = 90.00
c = 120.584	γ = 90.00

Software Package:

Software Name	Purpose
SCALEPACK	data scaling
HKL-2000	data reduction
SOLVE	phasing
CNS	refinement

Structure Validation

Entry History 

Deposition Data

• Deposited Date: 2003-11-25 
• Released Date: 2004-06-01 
• Deposition Author(s): Moore, T., Zhang, Y., Fenley, M.O., Li, H.

Revision History 

• Version 1.0: 2004-06-01
  Type: Initial release
• Version 1.1: 2008-04-29
  Type: Version format compliance
• Version 1.2: 2011-07-13
  Type: Version format compliance
• Version 1.3: 2018-04-18
  Type: Data collection