Biological Assembly 1  

 3D View: Structure | 1D-3D View | Validation Report

Global Symmetry: Asymmetric - C1 
Global Stoichiometry: Monomer - A1 

Biological assembly 1 assigned by authors.

Macromolecule Content

• Total Structure Weight: 17.49 kDa 
• Atom Count: 1241 
• Modelled Residue Count: 156 
• Deposited Residue Count: 156 
• Unique protein chains: 1

2N2M

NMR structure of yersinia pestis Ail (attachment invasion locus) in decylphosphocholine micelles

• PDB DOI: 10.2210/pdb2N2M/pdb
• BMRB: 25281

• Classification: MEMBRANE PROTEIN
• Organism(s): Yersinia pestis
• Expression System: Escherichia coli
• Mutation(s): No 


• Deposited: 2015-05-10 Released: 2015-07-22 
• Deposition Author(s): Marassi, F.M., Ding, Y., Yao, Y.

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Experimental Data Snapshot

• Method: SOLUTION NMR
• Conformers Calculated: 100 
• Conformers Submitted: 10 
• Selection Criteria: structures with the least restraint violations 

Literature

Backbone structure of Yersinia pestis Ail determined in micelles by NMR-restrained simulated annealing with implicit membrane solvation.

Marassi, F.M., Ding, Y., Schwieters, C.D., Tian, Y., Yao, Y.

(2015) J Biomol NMR 63: 59-65

• PubMed: 26143069 
• DOI: 10.1007/s10858-015-9963-2
• Primary Citation of Related Structures:  
  2N2L, 2N2M


• PubMed Abstract: 
  

The outer membrane protein Ail (attachment invasion locus) is a virulence factor of Yersinia pestis that mediates cell invasion, cell attachment and complement resistance. Here we describe its three-dimensional backbone structure determined in decyl-phosphocholine (DePC) micelles by NMR spectroscopy. The NMR structure was calculated using the membrane function of the implicit solvation potential, eefxPot, which we have developed to facilitate NMR structure calculations in a physically realistic environment. We show that the eefxPot force field guides the protein towards its native fold. The resulting structures provide information about the membrane-embedded global position of Ail, and have higher accuracy, higher precision and improved conformational properties, compared to the structures calculated with the standard repulsive potential.

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Organizational Affiliation: 

Sanford-Burnham Medical Research Institute, 10901 North Torrey Pines Road, La Jolla, CA, 92037, USA.

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Outer membrane protein X	A	156	Yersinia pestis	Mutation(s): 0  Gene Names: ompX, y1324
UniProt
Find proteins for Q8D0Z7 (Yersinia pestis) Explore Q8D0Z7  Go to UniProtKB:  Q8D0Z7

Experimental Data & Validation

Experimental Data

• Method: SOLUTION NMR
• Conformers Calculated: 100 
• Conformers Submitted: 10 
• Selection Criteria: structures with the least restraint violations 
• OLDERADO: 2N2M Olderado

Structure Validation

Entry History 

Deposition Data

• Deposited Date: 2015-05-10 
• Released Date: 2015-07-22 
Deposition Author(s): Marassi, F.M., Ding, Y., Yao, Y.

Revision History  

• Version 1.0: 2015-07-22
  Type: Initial release
  
• Version 1.1: 2015-10-07
  Changes: Database references