Biological Assembly 1  

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

Biological assembly 1 assigned by authors.

Macromolecule Content

• Total Structure Weight: 14760.75 
• Atom Count: 1010 
• Residue Count: 133 
• Unique protein chains: 1

2HNF

Structure of a Hyper-cleavable Monomeric Fragment of Phage lambda Repressor Containing the Cleavage Site Region

• DOI: 10.2210/pdb2HNF/pdb

• Classification: VIRAL PROTEIN
• Organism(s): Escherichia coli
• Expression System: Escherichia coli
• Mutation(s): 3 


• Deposited: 2006-07-12 Released: 2006-09-19 
• Deposition Author(s): Ndjonka, D., Bell, C.E.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 1.8 Å
• R-Value Free: 0.282 
• R-Value Work: 0.252 

Literature

Structure of a Hyper-cleavable Monomeric Fragment of Phage lambda Repressor Containing the Cleavage Site Region.

Ndjonka, D., Bell, C.E.

(2006) J.Mol.Biol. 362: 479-489

• PubMed: 16934834 
• DOI: 10.1016/j.jmb.2006.07.026
• Primary Citation of Related Structures:  
  2HO0


• PubMed Abstract: 
  

The key event in the switch from lysogenic to lytic growth of phage lambda is the self-cleavage of lambda repressor, which is induced by the formation of a RecA-ssDNA-ATP filament at a site of DNA damage. Lambda repressor cleaves itself at the peptide bond between Ala111 and Gly112, but only when bound as a monomer to the RecA-ssDNA-ATP filament. Here we have designed a hyper-cleavable fragment of lambda repressor containing the hinge and C-terminal domain (residues 101-229), in which the monomer-monomer interface is disrupted by two point mutations and a deletion of seven residues at the C terminus. This fragment crystallizes as a monomer and its structure has been determined to 1.8 A resolution. The hinge region, which bears the cleavage site, is folded over the active site of the C-terminal oligomerization domain (CTD) but with the cleavage site flipped out and exposed to solvent. Thus, the structure represents a non-cleavable conformation of the repressor, but one that is poised for cleavage after modest rearrangements that are presumably stabilized by binding to RecA. The structure provides a unique snapshot of lambda repressor in a conformation that sheds light on how its self-cleavage is tempered in the absence of RecA, as well as a framework for interpreting previous genetic and biochemical data concerning the RecA-mediated cleavage reaction.

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Organizational Affiliation: 

Department of Molecular and Cellular Biochemistry, Ohio State University College of Medicine, Columbus, OH 43210, USA.

Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details
Repressor protein cI101-229DM-K192A	A	133	Escherichia coli	Mutation(s): 3  Gene Names: cI
Find proteins for Q7B004 (Escherichia coli) Go to UniProtKB:  Q7B004

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram & Interactions
CA	A	CALCIUM ION Ca BHPQYMZQTOCNFJ-UHFFFAOYSA-N

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 1.8 Å
• R-Value Free: 0.282 
• R-Value Work: 0.252 
• Space Group: P 6₁ 2 2

Unit Cell:

Length (Å)	Angle (°)
a = 59.960	α = 90.00
b = 59.960	β = 90.00
c = 148.450	γ = 120.00

Software Package:

Software Name	Purpose
CrystalClear	data reduction
CNS	refinement
d*TREK	data scaling

Structure Validation

Entry History 

Deposition Data

• Deposited Date: 2006-07-12 
• Released Date: 2006-09-19 
• Deposition Author(s): Ndjonka, D., Bell, C.E.

Revision History 

• Version 1.0: 2006-09-19
  Type: Initial release
• Version 1.1: 2008-05-01
  Type: Version format compliance
• Version 1.2: 2011-07-13
  Type: Version format compliance