3GZG

Crystal structure of the Xanthomonas axonopodis pv. citri molybdate-binding protein (ModA) mutant (K127S)

• PDB DOI: https://doi.org/10.2210/pdb3GZG/pdb

• Classification: METAL BINDING PROTEIN
• Organism(s): Xanthomonas citri
• Expression System: Escherichia coli
• Mutation(s): Yes 


• Deposited: 2009-04-07 Released: 2009-05-12 
• Deposition Author(s): Santacruz-Perez, C., Pegos, V.R., Balan, A., Barbosa, J.A.R.G.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 1.55 Å
• R-Value Free: 
  0.235 (Depositor), 0.230 (DCC) 
• R-Value Work: 
  0.202 (Depositor), 0.200 (DCC) 
• R-Value Observed: 
  0.203 (Depositor) 

Starting Model: experimental

Literature

Crystal structure of the Xanthomonas axonopodis pv. citri molybdate-binding protein (ModA) mutant (K127S)

Santacruz-Perez, C., Pegos, V.R., Balan, A., Barbosa, J.A.R.G.

To be published.

Biological Assembly 1  

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

Biological assembly 1 assigned by authors.

Biological Assembly 2  

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

Biological assembly 2 assigned by authors.

Biological Assembly 3  

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

Biological assembly 3 assigned by authors.

Macromolecule Content

• Total Structure Weight: 80.39 kDa 
• Atom Count: 6,015 
• Modelled Residue Count: 696 
• Deposited Residue Count: 759 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Molybdate-binding periplasmic protein; permease	A, B, C	253	Xanthomonas citri	Mutation(s): 1  Gene Names: modA
UniProt
Find proteins for Q8PHA1 (Xanthomonas axonopodis pv. citri (strain 306)) Explore Q8PHA1  Go to UniProtKB:  Q8PHA1

Small Molecules

Ligands 2 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
MOO	F [auth A], G [auth B], I [auth C]	MOLYBDATE ION Mo O4 MEFBJEMVZONFCJ-UHFFFAOYSA-N
SO4	D [auth A], E [auth A], H [auth C]	SULFATE ION O4 S QAOWNCQODCNURD-UHFFFAOYSA-L

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 1.55 Å
• R-Value Free:  0.235 (Depositor), 0.230 (DCC) 
• R-Value Work:  0.202 (Depositor), 0.200 (DCC) 
• R-Value Observed: 0.203 (Depositor) 

Space Group: C 2 2 2₁

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 67.075	α = 90
b = 171.648	β = 90
c = 113.861	γ = 90

Software Package:

Software Name	Purpose
REFMAC	refinement
PDB_EXTRACT	data extraction
MAR345	data collection
HKL-2000	data reduction
HKL-2000	data scaling
MOLREP	phasing

Structure Validation

Entry History 

Deposition Data

• Released Date: 2009-05-12 
Deposition Author(s): Santacruz-Perez, C., Pegos, V.R., Balan, A., Barbosa, J.A.R.G.

Revision History  

• Version 1.0: 2009-05-12
  Type: Initial release
  
• Version 1.1: 2011-07-13
  Changes: Version format compliance
• Version 1.2: 2017-11-01
  Changes: Advisory, Refinement description
• Version 1.3: 2021-10-13
  Changes: Advisory, Database references, Derived calculations
• Version 1.4: 2023-09-06
  Changes: Data collection, Refinement description