1U1S | pdb_00001u1s

Hfq protein from Pseudomonas aeruginosa. Low-salt crystals

• PDB DOI: https://doi.org/10.2210/pdb1U1S/pdb

• Classification: RNA BINDING PROTEIN
• Organism(s): Pseudomonas aeruginosa
• Expression System: Escherichia coli
• Mutation(s): No 


• Deposited: 2004-07-16 Released: 2005-01-25 
• Deposition Author(s): Nikulin, A.D., Stolboushkina, E.A., Perederina, I., Vassilieva, I.M., Blaesi, U., Moll, I., Kachalova, G., Vassylyev, D., Yokoyama, S., Garber, M., Nikonov, S.V., RIKEN Structural Genomics/Proteomics Initiative (RSGI)

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 1.60 Å
• R-Value Free: 
  0.250 (Depositor), 0.250 (DCC) 
• R-Value Work: 
  0.223 (Depositor), 0.220 (DCC) 
• R-Value Observed: 
  0.223 (Depositor) 

Starting Model: experimental

Literature

Structure of Pseudomonas aeruginosa Hfq protein.

Nikulin, A., Stolboushkina, E., Perederina, A., Vassilieva, I., Blaesi, U., Moll, I., Kachalova, G., Yokoyama, S., Vassylyev, D., Garber, M., Nikonov, S.

(2005) Acta Crystallogr D Biol Crystallogr 61: 141-146

• PubMed: 15681864 
• DOI: https://doi.org/10.1107/S0907444904030008
• Primary Citation of Related Structures:  
  1U1S, 1U1T


• PubMed Abstract: 
  

  The structure of the Hfq protein from Pseudomonas aeruginosa was determined using two different ionic conditions. In both cases the molecules formed identical hexameric rings, but some variations in the crystal packing were revealed. Hfq belongs to the family of Sm/LSm proteins, the members of which can form hexameric as well as heptameric rings. Comparative analysis of known structures of this protein family shows that the fragment of the Sm-fold responsible for oligomerization is strongly structurally conserved. In the heptameric ring, three conserved hydrogen bonds between beta-strands of adjacent molecules hold together the monomers, whereas in the hexameric rings of Hfq an additional conserved inaccessible hydrogen bond between neighbouring monomers is observed.

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Organizational Affiliation: 

Institute of Protein Research, Russian Academy of Sciences, 142290 Pushchino, Moscow Region, Russia. [e-mail]

Biological Assembly 1  

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

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

Macromolecule Content 

• Total Structure Weight: 54.69 kDa 
• Atom Count: 3,421 
• Modeled Residue Count: 394 
• Deposited Residue Count: 492 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Hfq protein	A, B, C, D, E, F	82	Pseudomonas aeruginosa	Mutation(s): 0  Gene Names: hfq
UniProt
Find proteins for Q9HUM0 (Pseudomonas aeruginosa (strain ATCC 15692 / DSM 22644 / CIP 104116 / JCM 14847 / LMG 12228 / 1C / PRS 101 / PAO1)) Explore Q9HUM0  Go to UniProtKB:  Q9HUM0

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 1.60 Å
• R-Value Free:  0.250 (Depositor), 0.250 (DCC) 
• R-Value Work:  0.223 (Depositor), 0.220 (DCC) 
• R-Value Observed: 0.223 (Depositor) 

Space Group: P 2₁ 2₁ 2₁

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 61	α = 90
b = 73.26	β = 90
c = 106.18	γ = 90

Software Package:

Software Name	Purpose
CNS	refinement
XDS	data reduction
XDS	data scaling
AMoRE	phasing

Structure Validation

Entry History 

Deposition Data

• Released Date: 2005-01-25 
Deposition Author(s): Nikulin, A.D., Stolboushkina, E.A., Perederina, I., Vassilieva, I.M., Blaesi, U., Moll, I., Kachalova, G., Vassylyev, D., Yokoyama, S., Garber, M., Nikonov, S.V., RIKEN Structural Genomics/Proteomics Initiative (RSGI)

Revision History  

• Version 1.0: 2005-01-25
  Type: Initial release
  
• Version 1.1: 2008-04-30
  Changes: Version format compliance
• Version 1.2: 2011-07-13
  Changes: Version format compliance
• Version 1.3: 2023-08-23
  Changes: Data collection, Database references, Refinement description