1S4K | pdb_00001s4k

Putative cytoplasmic protein from Salmonella typhimurium

• PDB DOI: https://doi.org/10.2210/pdb1S4K/pdb

• Classification: structural genomics, unknown function
• Organism(s): Salmonella enterica subsp. enterica serovar Typhimurium str. LT2
• Expression System: Escherichia coli BL21
• Mutation(s): Yes 


• Deposited: 2004-01-16 Released: 2004-06-29 
• Deposition Author(s): Cuff, M.E., Li, H., Collart, F., Joachimiak, A., Midwest Center for Structural Genomics (MCSG)

---

Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 1.90 Å
• R-Value Free: 
  0.219 (Depositor), 0.218 (DCC) 
• R-Value Work: 
  0.191 (Depositor), 0.191 (DCC) 
• R-Value Observed: 
  0.191 (Depositor) 

Literature

Putative cytoplasmic protein from Salmonella typhimurium

Cuff, M.E., Li, H., Collart, F., Joachimiak, A.

To be published.

Biological Assembly 1  

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

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

Macromolecule Content 

• Total Structure Weight: 28.8 kDa 
• Atom Count: 2,379 
• Modeled Residue Count: 240 
• Deposited Residue Count: 240 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
putative cytoplasmic protein ydil	A, B	120	Salmonella enterica subsp. enterica serovar Typhimurium str. LT2	Mutation(s): 5  Gene Names: ydiL
UniProt
Find proteins for Q8ZPR1 (Salmonella typhimurium (strain LT2 / SGSC1412 / ATCC 700720)) Explore Q8ZPR1  Go to UniProtKB:  Q8ZPR1

Small Molecules

Modified Residues  1 Unique
ID	Chains	Type	Formula	2D Diagram	Parent
MSE	A, B	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:  0.219 (Depositor), 0.218 (DCC) 
• R-Value Work:  0.191 (Depositor), 0.191 (DCC) 
• R-Value Observed: 0.191 (Depositor) 

Space Group: C 2 2 2₁

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 85.596	α = 90
b = 90.258	β = 90
c = 78.669	γ = 90

Software Package:

Software Name	Purpose
CNS	refinement
d*TREK	data reduction
HKL-2000	data reduction
HKL-2000	data scaling
SOLVE	phasing
autoSHARP	phasing

Structure Validation

Entry History 

Deposition Data

• Released Date: 2004-06-29 
Deposition Author(s): Cuff, M.E., Li, H., Collart, F., Joachimiak, A., Midwest Center for Structural Genomics (MCSG)

Revision History  

• Version 1.0: 2004-06-29
  Type: Initial release
  
• Version 1.1: 2008-04-29
  Changes: Version format compliance
• Version 1.2: 2011-07-13
  Changes: Source and taxonomy, Version format compliance
• Version 1.3: 2024-11-13
  Changes: Data collection, Database references, Derived calculations, Structure summary