3UOR | pdb_00003uor

The structure of the sugar-binding protein MalE from the phytopathogen Xanthomonas citri

• PDB DOI: https://doi.org/10.2210/pdb3UOR/pdb

• Classification: SUGAR BINDING PROTEIN
• Organism(s): Xanthomonas citri subsp. citri 306
• Expression System: Escherichia coli
• Mutation(s): No 


• Deposited: 2011-11-17 Released: 2011-12-14 
• Deposition Author(s): Medrano, F.J., Souza, C.S., Balan, A.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 2.20 Å
• R-Value Free: 
  0.228 (Depositor), 0.221 (DCC) 
• R-Value Work: 
  0.189 (Depositor), 0.184 (DCC) 
• R-Value Observed: 
  0.191 (Depositor) 

Literature

Structure determination of a sugar-binding protein from the phytopathogenic bacterium Xanthomonas citri.

Medrano, F.J., de Souza, C.S., Romero, A., Balan, A.

(2014) Acta Crystallogr Sect F Struct Biol Cryst Commun 70: 564-571

• PubMed: 24817711 
• DOI: https://doi.org/10.1107/S2053230X14006578
• Primary Citation Related Structures: 
  3UOR


• PubMed Abstract: 
  

  The uptake of maltose and related sugars in Gram-negative bacteria is mediated by an ABC transporter encompassing a periplasmic component (the maltose-binding protein or MalE), a pore-forming membrane protein (MalF and MalG) and a membrane-associated ATPase (MalK). In the present study, the structure determination of the apo form of the putative maltose/trehalose-binding protein (Xac-MalE) from the citrus pathogen Xanthomonas citri in space group P6522 is described. The crystals contained two protein molecules in the asymmetric unit and diffracted to 2.8 Å resolution. Xac-MalE conserves the structural and functional features of sugar-binding proteins and a ligand-binding pocket with similar characteristics to eight different orthologues, including the residues for maltose and trehalose interaction. This is the first structure of a sugar-binding protein from a phytopathogenic bacterium, which is highly conserved in all species from the Xanthomonas genus.

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Organizational Affiliation: 
• Department of Chemical and Physical Biology, Centro de Investigaciones Biologicas (CSIC), Madrid, Spain.
Departamento de Microbiologia, Instituto de Ciências Biomédicas II, Universidade de São Paulo, Cidade Universitária, SP, Brazil.

Biological Assembly 1  

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

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

Biological Assembly 2  

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

Biological assembly 2 assigned by authors and generated by PISA (software)

Macromolecule Content 

• Total Structure Weight: 102.77 kDa 
• Atom Count: 6,719 
• Modeled Residue Count: 792 
• Deposited Residue Count: 916 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
ABC transporter sugar binding protein	A, B	458	Xanthomonas citri subsp. citri 306	Mutation(s): 0  Gene Names: malE, XAC2310

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 2.20 Å
• R-Value Free:  0.228 (Depositor), 0.221 (DCC) 
• R-Value Work:  0.189 (Depositor), 0.184 (DCC) 
• R-Value Observed: 0.191 (Depositor) 

Space Group: P 6₅ 2 2

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 122.971	α = 90
b = 122.971	β = 90
c = 304.28	γ = 120

Software Package:

Software Name	Purpose
MxCuBE	data collection
SHARP	phasing
PHENIX	refinement
XDS	data reduction
SCALA	data scaling

Structure Validation

Entry History 

Deposition Data

• Released Date: 2011-12-14 
Deposition Author(s): Medrano, F.J., Souza, C.S., Balan, A.

Revision History  

• Version 1.0: 2011-12-14
  Type: Initial release
  
• Version 1.1: 2014-05-14
  Changes: Database references
• Version 1.2: 2014-09-24
  Changes: Database references
• Version 1.3: 2017-11-08
  Changes: Refinement description
• Version 1.4: 2024-02-28
  Changes: Data collection, Database references