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 and generated by PISA (software)

Macromolecule Content

• Total Structure Weight: 22.16 kDa 
• Atom Count: 1534 
• Modelled Residue Count: 143 
• Deposited Residue Count: 149 
• Unique protein chains: 1
• Unique nucleic acid chains: 1

4BW0

The molecular recognition of kink turn structure by the L7Ae class of proteins

• PDB DOI: 10.2210/pdb4BW0/pdb
• NDB: NA2731

• Classification: RNA/RNA BINDING PROTEIN
• Organism(s): Haloarcula marismortui, Archaeoglobus fulgidus
• Expression System: Escherichia coli BL21(DE3)
• Mutation(s): No 


• Deposited: 2013-06-29 Released: 2013-11-06 
• Deposition Author(s): Huang, L., Lilley, D.M.J.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 2.33 Å
• R-Value Free: 0.201 
• R-Value Work: 0.180 
• R-Value Observed: 0.181 

Literature

The Molecular Recognition of Kink-Turn Structure by the L7Ae Class of Proteins.

Huang, L., Lilley, D.M.J.

(2013) RNA 19: 1703

• PubMed: 24149842 
• DOI: 10.1261/rna.041517.113
• Primary Citation of Related Structures:  
  4BW0, 4C40


• PubMed Abstract: 
  

L7Ae is a member of a protein family that binds kink-turns (k-turns) in many functional RNA species. We have solved the X-ray crystal structure of the near-consensus sequence Kt-7 of Haloarcula marismortui bound by Archaeoglobus fulgidus L7Ae at 2.3-Å resolution. We also present a structure of Kt-7 in the absence of bound protein at 2.2-Å resolution. As a result, we can describe a general mode of recognition of k-turn structure by the L7Ae family proteins. The protein makes interactions in the widened major groove on the outer face of the k-turn. Two regions of the protein are involved. One is an α-helix that enters the major groove of the NC helix, making both nonspecific backbone interactions and specific interactions with the guanine nucleobases of the conserved G • A pairs. A hydrophobic loop makes close contact with the L1 and L2 bases, and a glutamate side chain hydrogen bonds with L1. Taken together, these interactions are highly selective for the structure of the k-turn and suggest how conformational selection of the folded k-turn occurs.

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Organizational Affiliation: 

Department of Molecular Biology and The Skaggs Institute for Chemical Biology, The Scripps Research Institute, 10550 North Torrey Pines Road, La Jolla, CA 92037, USA.

Macromolecules

Entity ID: 2
Molecule	Chains	Sequence Length	Organism	Details	Image
50S RIBOSOMAL PROTEIN L7AE	B	123	Archaeoglobus fulgidus	Mutation(s): 0
UniProt
Find proteins for O29494 (Archaeoglobus fulgidus (strain ATCC 49558 / DSM 4304 / JCM 9628 / NBRC 100126 / VC-16)) Explore O29494  Go to UniProtKB:  O29494

Entity ID: 1
Molecule	Chains	Length	Organism	Image
HMKT-7	A	26	Haloarcula marismortui

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
SO4	C [auth A]	SULFATE ION O4 S QAOWNCQODCNURD-UHFFFAOYSA-L

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 2.33 Å
• R-Value Free: 0.201 
• R-Value Work: 0.180 
• R-Value Observed: 0.181 
• Space Group: P 4₃ 2₁ 2

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 61.92	α = 90
b = 61.92	β = 90
c = 130.97	γ = 90

Software Package:

Software Name	Purpose
PHENIX	refinement
MOSFLM	data reduction
SCALEPACK	data scaling
PHASER	phasing

Structure Validation

Entry History 

Deposition Data

• Deposited Date: 2013-06-29 
• Released Date: 2013-11-06 
Deposition Author(s): Huang, L., Lilley, D.M.J.

Revision History  

• Version 1.0: 2013-11-06
  Type: Initial release
  
• Version 1.1: 2013-11-27
  Changes: Database references