8ZF3 | pdb_00008zf3

Quorum Sensing Master Regulator SmcR of Photobacterium profundum

• PDB DOI: https://doi.org/10.2210/pdb8ZF3/pdb

• Classification: TRANSCRIPTION
• Organism(s): Photobacterium profundum
• Expression System: Escherichia coli BL21
• Mutation(s): No 


• Deposited: 2024-05-07 Released: 2025-05-07 
• Deposition Author(s): Basu Choudhury, G., Saha, A., Raychaudhuri, S., Datta, S.
• Funding Organization(s): Council of Scientific & Industrial Research (CSIR)

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 1.78 Å
• R-Value Free: 
  0.231 (Depositor), 0.231 (DCC) 
• R-Value Work: 
  0.190 (Depositor), 0.190 (DCC) 
• R-Value Observed: 
  0.192 (Depositor) 

Starting Model: experimental

Literature

Quorum Sensing Master Regulator SmcR of Photobacterium profundum

Basu Choudhury, G., Saha, A., Raychaudhuri, S., Datta, S.

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)

Biological Assembly Evidence: gel filtration

Macromolecule Content 

• Total Structure Weight: 46.81 kDa 
• Atom Count: 3,474 
• Modeled Residue Count: 382 
• Deposited Residue Count: 404 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Hypothetical OpaR	A, B	202	Photobacterium profundum	Mutation(s): 0  Gene Names: SMCR, PBPRA3181
UniProt
Find proteins for Q6LMJ0 (Photobacterium profundum (strain SS9)) Explore Q6LMJ0  Go to UniProtKB:  Q6LMJ0

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 1.78 Å
• R-Value Free:  0.231 (Depositor), 0.231 (DCC) 
• R-Value Work:  0.190 (Depositor), 0.190 (DCC) 
• R-Value Observed: 0.192 (Depositor) 

Space Group: P 1

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 45.546	α = 92.62
b = 45.901	β = 91.05
c = 49.481	γ = 99.94

Software Package:

Software Name	Purpose
PHENIX	refinement
PROTEUM PLUS	data reduction
PROTEUM PLUS	data scaling
PHASER	phasing

Structure Validation

Entry History & Funding Information

Deposition Data

• Released Date: 2025-05-07 
Deposition Author(s): Basu Choudhury, G., Saha, A., Raychaudhuri, S., Datta, S.

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Funding Organization	Location	Grant Number
Council of Scientific & Industrial Research (CSIR)	India	--

Revision History  

• Version 1.0: 2025-05-07
  Type: Initial release