2PP6 | pdb_00002pp6

Crystal structure of the ATP-binding sugar transporter-like protein from Salmonella typhimurium

• PDB DOI: https://doi.org/10.2210/pdb2PP6/pdb

• Classification: TRANSPORT PROTEIN
• Organism(s): Salmonella enterica subsp. enterica serovar Typhimurium str. LT2
• Expression System: Escherichia coli BL21(DE3)
• Mutation(s): Yes 


• Deposited: 2007-04-28 Released: 2007-05-29 
• Deposition Author(s): Kim, Y., Li, H., Holzle, D., Joachimiak, A., Midwest Center for Structural Genomics (MCSG)

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 2.70 Å
• R-Value Free: 
  0.279 (Depositor), 0.272 (DCC) 
• R-Value Work: 
  0.210 (Depositor), 0.199 (DCC) 
• R-Value Observed: 
  0.216 (Depositor) 

Literature

Crystal structure of the ATP-binding sugar transporter-like protein from Salmonella typhimurium.

Kim, Y., Li, H., Holzle, D., Joachimiak, A.

To be published.

Biological Assembly 1  

Global Symmetry: Dihedral - D2  (Explore in 3D)
Global Stoichiometry: Homo 4-mer - A4 

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

Biological Assembly 2  

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

Biological assembly 2 generated by PQS (software)

Macromolecule Content 

• Total Structure Weight: 11.34 kDa 
• Atom Count: 717 
• Modeled Residue Count: 88 
• Deposited Residue Count: 102 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Gifsy-2 prophage ATP-binding sugar transporter-like protein	A	102	Salmonella enterica subsp. enterica serovar Typhimurium str. LT2	Mutation(s): 4  Gene Names: STM1035
UniProt
Find proteins for Q8ZQ92 (Salmonella typhimurium (strain LT2 / SGSC1412 / ATCC 700720)) Explore Q8ZQ92  Go to UniProtKB:  Q8ZQ92

Small Molecules

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: 2.70 Å
• R-Value Free:  0.279 (Depositor), 0.272 (DCC) 
• R-Value Work:  0.210 (Depositor), 0.199 (DCC) 
• R-Value Observed: 0.216 (Depositor) 

Space Group: P 4 2₁ 2

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 51.82	α = 90
b = 51.82	β = 90
c = 69.329	γ = 90

Software Package:

Software Name	Purpose
REFMAC	refinement
SBC-Collect	data collection
HKL-2000	data collection
HKL-2000	data reduction
HKL-2000	data scaling
HKL-3000	phasing
SHELXCD	phasing
SHELXD	phasing
SHELXE	model building
MLPHARE	phasing
SOLVE	phasing
RESOLVE	phasing
PHENIX	phasing

Structure Validation

Entry History 

Deposition Data

• Released Date: 2007-05-29 
Deposition Author(s): Kim, Y., Li, H., Holzle, D., Joachimiak, A., Midwest Center for Structural Genomics (MCSG)

Revision History  

• Version 1.0: 2007-05-29
  Type: Initial release
  
• Version 1.1: 2008-05-01
  Changes: Version format compliance
• Version 1.2: 2011-07-13
  Changes: Advisory, Derived calculations, Version format compliance
• Version 1.3: 2017-10-18
  Changes: Refinement description
• Version 1.4: 2024-10-30
  Changes: Data collection, Database references, Derived calculations, Structure summary