Biological Assembly 1  

 3D View: Structure | Electron Density | 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: 122.71 kDa 
• Atom Count: 9448 
• Modelled Residue Count: 1058 
• Deposited Residue Count: 1084 
• Unique protein chains: 1

4KMQ

1.9 Angstrom resolution crystal structure of uncharacterized protein lmo2446 from Listeria monocytogenes EGD-e

• DOI: 10.2210/pdb4KMQ/pdb

• Classification: STRUCTURAL GENOMICS, UNKNOWN FUNCTION
• Organism(s): Listeria monocytogenes EGD-e
• Expression System: Escherichia coli BL21
• Mutation(s): No 


• Deposited: 2013-05-08 Released: 2013-05-29 
• Deposition Author(s): Halavaty, A.S., Minasov, G., Filippova, E.V., Dubrovska, I., Winsor, J., Shuvalova, L., Peterson, S., Anderson, W.F., Center for Structural Genomics of Infectious Diseases (CSGID)

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 1.90 Å
• R-Value Free: 0.184 
• R-Value Work: 0.151 
• R-Value Observed: 0.153 

Literature

Structure to function of an alpha-glucan metabolic pathway that promotes Listeria monocytogenes pathogenesis.

Light, S.H., Cahoon, L.A., Halavaty, A.S., Freitag, N.E., Anderson, W.F.

(2016) Nat Microbiol 2: 16202-16202

• PubMed: 27819654 
• DOI: 10.1038/nmicrobiol.2016.202
• Primary Citation of Related Structures:  
  5DO8, 5F7V, 5F7Q, 5F7P, 5F7S, 5F7R, 5F7U, 4KMQ


• PubMed Abstract: 
  

Here we employ a 'systems structural biology' approach to functionally characterize an unconventional α-glucan metabolic pathway from the food-borne pathogen Listeria monocytogenes (Lm). Crystal structure determination coupled with basic biochemical and biophysical assays allowed for the identification of anabolic, transport, catabolic and regulatory portions of the cycloalternan pathway. These findings provide numerous insights into cycloalternan pathway function and reveal the mechanism of repressor, open reading frame, kinase (ROK) transcription regulators. Moreover, by developing a structural overview we were able to anticipate the cycloalternan pathway's role in the metabolism of partially hydrolysed starch derivatives and demonstrate its involvement in Lm pathogenesis. These findings suggest that the cycloalternan pathway plays a role in interspecies resource competition-potentially within the host gastrointestinal tract-and establish the methodological framework for characterizing bacterial systems of unknown function.

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Organizational Affiliation: 

Center for Structural Genomics of Infectious Diseases and Department of Biochemistry and Molecular Genetics, Feinberg School of Medicine, Northwestern University, Chicago, Illinois 60611, USA.

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Lmo2446 protein	A	1084	Listeria monocytogenes EGD-e	Mutation(s): 0  Gene Names: lmo2446
Find proteins for Q8Y4J2 (Listeria monocytogenes serovar 1/2a (strain ATCC BAA-679 / EGD-e)) Explore Q8Y4J2  Go to UniProtKB:  Q8Y4J2

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
MG	A	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: 1.90 Å
• R-Value Free: 0.184 
• R-Value Work: 0.151 
• R-Value Observed: 0.153 
• Space Group: C 1 2 1
• Diffraction Data DOI: 10.18430/M34KMQ Protein Diffraction

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 164.858	α = 90
b = 102.359	β = 104.86
c = 74.334	γ = 90

Software Package:

Software Name	Purpose
Blu-Ice	data collection
MLPHARE	phasing
REFMAC	refinement
HKL-3000	data reduction
HKL-3000	data scaling

Structure Validation

Entry History 

Deposition Data

• Deposited Date: 2013-05-08 
• Released Date: 2013-05-29 
Deposition Author(s): Halavaty, A.S., Minasov, G., Filippova, E.V., Dubrovska, I., Winsor, J., Shuvalova, L., Peterson, S., Anderson, W.F., Center for Structural Genomics of Infectious Diseases (CSGID)

Revision History  

• Version 1.0: 2013-05-29
  Type: Initial release
  
• Version 1.1: 2016-11-23
  Changes: Database references
• Version 1.2: 2017-11-15
  Changes: Refinement description