3COL | pdb_00003col

Crystal structure of putative transcription regulator from Lactobacillus plantarum

• PDB DOI: https://doi.org/10.2210/pdb3COL/pdb

• Classification: TRANSCRIPTION REGULATOR
• Organism(s): Lactiplantibacillus plantarum WCFS1
• Expression System: Escherichia coli
• Mutation(s): No 


• Deposited: 2008-03-28 Released: 2008-04-08 
• Deposition Author(s): Chang, C., Bigelow, L., Freeman, L., Joachimiak, A., Midwest Center for Structural Genomics (MCSG)

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 2.10 Å
• R-Value Free: 
  0.246 (Depositor), 0.249 (DCC) 
• R-Value Work: 
  0.185 (Depositor), 0.187 (DCC) 
• R-Value Observed: 
  0.188 (Depositor) 

Literature

Crystal structure of putative transcription regulator from Lactobacillus plantarum.

Chang, C., Bigelow, L., Freeman, L., 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: 43.99 kDa 
• Atom Count: 3,132 
• Modeled Residue Count: 354 
• Deposited Residue Count: 392 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Putative transcription regulator	A, B	196	Lactiplantibacillus plantarum WCFS1	Mutation(s): 0  Gene Names: lp_3090
UniProt
Find proteins for F9USK4 (Lactiplantibacillus plantarum (strain ATCC BAA-793 / NCIMB 8826 / WCFS1)) Explore F9USK4  Go to UniProtKB:  F9USK4

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
GOL	C [auth B]	GLYCEROL C3 H8 O3 PEDCQBHIVMGVHV-UHFFFAOYSA-N

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: 2.10 Å
• R-Value Free:  0.246 (Depositor), 0.249 (DCC) 
• R-Value Work:  0.185 (Depositor), 0.187 (DCC) 
• R-Value Observed: 0.188 (Depositor) 

Space Group: P 2₁ 2₁ 2₁

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 64.213	α = 90
b = 66.936	β = 90
c = 93.404	γ = 90

Software Package:

Software Name	Purpose
REFMAC	refinement
SBC-Collect	data collection
HKL-3000	data reduction
HKL-3000	data scaling
HKL-3000	phasing

Structure Validation

Entry History 

Deposition Data

• Released Date: 2008-04-08 
Deposition Author(s): Chang, C., Bigelow, L., Freeman, L., Joachimiak, A., Midwest Center for Structural Genomics (MCSG)

Revision History  

• Version 1.0: 2008-04-08
  Type: Initial release
  
• Version 1.1: 2011-07-13
  Changes: Advisory, Version format compliance
• Version 1.2: 2024-11-13
  Changes: Data collection, Database references, Derived calculations, Structure summary