Biological Assembly 1  

 3D View: Structure | Ligand Interaction

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

Biological assembly 1 assigned by authors.

Macromolecule Content

• Total Structure Weight: 29612.93 
• Atom Count: 2021 
• Residue Count: 146 
• Unique protein chains: 1
• Unique nucleic acid chains: 1

1F7Y

THE CRYSTAL STRUCTURE OF TWO UUCG LOOPS HIGHLIGHTS THE ROLE PLAYED BY 2'-HYDROXYL GROUPS IN ITS UNUSUAL STABILITY

• DOI: 10.2210/pdb1F7Y/pdb
• NDB: RR0010

• Classification: RIBOSOME
• Organism(s): Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579)
• Expression System: Escherichia coli
• Mutation(s): 4 


• Deposited: 2000-06-28 Released: 2000-11-22 
• Deposition Author(s): Ennifar, E., Nikouline, A., Serganov, A., Tishchenko, S., Nevskaya, N., Garber, M., Ehresmann, B., Ehresmann, C., Nikonov, S., Dumas, P.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 2.8 Å
• R-Value Free: 0.289 
• R-Value Work: 0.222 

Literature

The crystal structure of UUCG tetraloop.

Ennifar, E., Nikulin, A., Tishchenko, S., Serganov, A., Nevskaya, N., Garber, M., Ehresmann, B., Ehresmann, C., Nikonov, S., Dumas, P.

(2000) J.Mol.Biol. 304: 35-42

• PubMed: 11071808 
• DOI: 10.1006/jmbi.2000.4204


• PubMed Abstract: 
  

All large structured RNAs contain hairpin motifs made of a stem closed by several looped nucleotides. The most frequent loop motif is the UUCG one. This motif belongs to the tetraloop family and has the peculiarity of being highly thermodynamically stable. Here, we report the first crystal structure of two UUCG tetraloops embedded in a larger RNA-protein complex solved at 2.8 A resolution. The two loops present in the asymmetric unit are in a different crystal packing environment but, nevertheless, have an identical conformation. The observed structure is globally close to that obtained in solution by nuclear magnetic resonance. However, subtle differences point to a more detailed picture of the role played by 2'-hydroxyl groups in stabilising this tetraloop.

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Organizational Affiliation: 

UPR 9002 du CNRS, IBMC, 15 rue R. Descartes, 67084 Strasbourg-cedex, France.

Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 2
Molecule	Chains	Sequence Length	Organism	Details
30S RIBOSOMAL PROTEIN S15	A	89	Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579)	Mutation(s): 4  Gene Names: rpsO
Find proteins for Q5SJ76 (Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579)) Go to UniProtKB:  Q5SJ76

Entity ID: 1
Molecule	Chains	Length	Organism
16S RIBOSOMAL RNA FRAGMENT	B	57	N/A

Small Molecules

Ligands 3 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram & Interactions
K	A	POTASSIUM ION K NPYPAHLBTDXSSS-UHFFFAOYSA-N
NA	B	SODIUM ION Na FKNQFGJONOIPTF-UHFFFAOYSA-N
MG	B	MAGNESIUM ION Mg JLVVSXFLKOJNIY-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: 2.8 Å
• R-Value Free: 0.289 
• R-Value Work: 0.222 
• Space Group: P 6₄ 2 2

Unit Cell:

Length (Å)	Angle (°)
a = 128.800	α = 90.00
b = 128.800	β = 90.00
c = 65.100	γ = 120.00

Software Package:

Software Name	Purpose
DENZO	data reduction
SCALEPACK	data scaling
SHARP	phasing
CNS	refinement

Structure Validation

Entry History 

Deposition Data

• Deposited Date: 2000-06-28 
• Released Date: 2000-11-22 
• Deposition Author(s): Ennifar, E., Nikouline, A., Serganov, A., Tishchenko, S., Nevskaya, N., Garber, M., Ehresmann, B., Ehresmann, C., Nikonov, S., Dumas, P.

Revision History 

• Version 1.0: 2000-11-22
  Type: Initial release
• Version 1.1: 2008-04-27
  Type: Version format compliance
• Version 1.2: 2011-07-13
  Type: Version format compliance
• Version 1.3: 2011-12-28
  Type: Advisory