4AB5

Regulatory domain structure of NMB2055 (MetR) a LysR family regulator from N. meningitidis

• PDB DOI: https://doi.org/10.2210/pdb4AB5/pdb

• Classification: TRANSCRIPTION
• Organism(s): Neisseria meningitidis serogroup B
• Expression System: Escherichia coli
• Mutation(s): No 


• Deposited: 2011-12-07 Released: 2012-07-11 
• Deposition Author(s): Sainsbury, S., Ren, J., Saunders, N.J., Stuart, D.I., Owens, R.J.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 2.51 Å
• R-Value Free: 0.238 
• R-Value Work: 0.186 
• R-Value Observed: 0.189 

Literature

Structure of the Regulatory Domain of the Lysr Family Regulator Nmb2055 (Metr-Like Protein) from Neisseria Meningitidis

Sainsbury, S., Ren, J., Saunders, N.J., Stuart, D.I., Owens, R.J.

(2012) Acta Crystallogr Sect F Struct Biol Cryst Commun 68: 730

• PubMed: 22750853 
• DOI: https://doi.org/10.1107/S1744309112010603
• Primary Citation of Related Structures:  
  4AB5, 4AB6


• PubMed Abstract: 
  

  The crystal structure of the regulatory domain of NMB2055, a putative MetR regulator from Neisseria meningitidis, is reported at 2.5 Å resolution. The structure revealed that there is a disulfide bond inside the predicted effector-binding pocket of the regulatory domain. Mutation of the cysteines (Cys103 and Cys106) that form the disulfide bond to serines resulted in significant changes to the structure of the effector pocket. Taken together with the high degree of conservation of these cysteine residues within MetR-related transcription factors, it is suggested that the Cys103 and Cys106 residues play an important role in the function of MetR regulators.

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Organizational Affiliation: 

Division of Structural Biology, Henry Wellcome Building for Genomic Medicine, University of Oxford, Roosevelt Drive, Oxford OX3 7BN, England. [e-mail]

Biological Assembly 1  

Global Symmetry: Cyclic - C2  (Explore in 3D)
Global Stoichiometry: Homo 2-mer - A2 

Biological assembly 1 assigned by authors and generated by PISA (software)

Macromolecule Content

• Total Structure Weight: 50.33 kDa 
• Atom Count: 3,628 
• Modelled Residue Count: 436 
• Deposited Residue Count: 444 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
TRANSCRIPTIONAL REGULATOR, LYSR FAMILY	A, B	222	Neisseria meningitidis serogroup B	Mutation(s): 0
UniProt
Find proteins for Q9JXG8 (Neisseria meningitidis serogroup B (strain MC58)) Explore Q9JXG8  Go to UniProtKB:  Q9JXG8

Small Molecules

Modified Residues  1 Unique
ID	Chains	Type	Formula	2D Diagram	Parent
MSE	A, B	L-PEPTIDE LINKING	C5 H11 N O2 Se		MET

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 2.51 Å
• R-Value Free: 0.238 
• R-Value Work: 0.186 
• R-Value Observed: 0.189 
• Space Group: P 1 2₁ 1

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 65.14	α = 90
b = 52.57	β = 94.09
c = 65.89	γ = 90

Software Package:

Software Name	Purpose
BUSTER	refinement

Structure Validation

Entry History 

Deposition Data

• Released Date: 2012-07-11 
Deposition Author(s): Sainsbury, S., Ren, J., Saunders, N.J., Stuart, D.I., Owens, R.J.

Revision History  

• Version 1.0: 2012-07-11
  Type: Initial release