8P9M

Hexameric Hfq from Chromobacterium haemolyticum

• PDB DOI: https://doi.org/10.2210/pdb8P9M/pdb

• Classification: RNA BINDING PROTEIN
• Organism(s): Chromobacterium haemolyticum
• Expression System: Escherichia coli BL21(DE3)
• Mutation(s): No 


• Deposited: 2023-06-06 Released: 2024-05-15 
• Deposition Author(s): Nikulin, A.D., Lekontseva, N.V.
• Funding Organization(s): Ministry of Science and Higher Education of the Russian Federation

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 2.00 Å
• R-Value Free: 0.281 
• R-Value Work: 0.222 
• R-Value Observed: 0.225 

Starting Model: experimental

Literature

The Structure of the Hfq Protein from Chromobacterium haemolyticum Revealed a New Variant of Regulation of RNA Binding with the Protein

Lekontseva, N.V., Nikulin, A.D.

(2023) Crystallogr Rep 68: 905-911

• DOI: https://doi.org/10.1134/S1063774523600928

Biological Assembly 1  

Global Symmetry: Cyclic - C6  (Explore in 3D)
Global Stoichiometry: Homo 6-mer - A6 

Biological assembly 1 assigned by authors.

Biological Assembly Evidence: homology

Macromolecule Content

• Total Structure Weight: 58.23 kDa 
• Atom Count: 3,534 
• Modelled Residue Count: 410 
• Deposited Residue Count: 510 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
RNA-binding protein Hfq	A, B, C, D, E, F	85	Chromobacterium haemolyticum	Mutation(s): 0  Gene Names: hfq, B0T39_13335, B0T45_12055, CH06BL_33310, DBB33_18715
UniProt
Find proteins for A0A1W0CX06 (Chromobacterium haemolyticum) Explore A0A1W0CX06  Go to UniProtKB:  A0A1W0CX06

Small Molecules

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

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 2.00 Å
• R-Value Free: 0.281 
• R-Value Work: 0.222 
• R-Value Observed: 0.225 
• Space Group: P 2₁ 2₁ 2₁

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 58.505	α = 90
b = 71.653	β = 90
c = 96.652	γ = 90

Software Package:

Software Name	Purpose
PHENIX	refinement
Aimless	data scaling
PHASER	phasing
CrysalisPro	data reduction

Structure Validation

Entry History & Funding Information

Deposition Data

• Released Date: 2024-05-15 
Deposition Author(s): Nikulin, A.D., Lekontseva, N.V.

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Funding Organization	Location	Grant Number
Ministry of Science and Higher Education of the Russian Federation	Russian Federation	--

Revision History  

• Version 1.0: 2024-05-15
  Type: Initial release