Evidence map›Paper›PMID 25640193›Full record

ArticleBiochemistry2015

Concerted motions networking pores and distant ferroxidase centers enable bacterioferritin function and iron traffic.

Huili Yao, Huan Rui, Ritesh Kumar, Kate Eshelman, Scott Lovell, Kevin P Battaile, Wonpil Im, Mario Rivera

Open access · greenAbstract read
In one paragraph

Article in Biochemistry, 2015. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 15 papers.

0numbers the graph read from it
0cells of the map it votes in
15citing papers in PubMed
1.9field-weighted citation impact, top 14% of its field
1 · What the graph read from it

What it found

Each row is one number read from the abstract, on the scale the paper reported it, with its interval. Left of the dashed line favours the treatment, right favours the comparator. Under each row is the sentence it came from. New to these charts? A ten-minute tutorial.

The abstract states no effect estimate the extractor could read, or names no intervention and outcome on the map, so this paper lights no cell and moves no belief. It is still indexed, cited and linked below.

2 · The registry

The trial behind it

Trials whose registry record cites this paper, or whose number appears in the abstract. A trial that started after this paper was published is citing it as background, not reporting it.

Neither the registry nor the abstract names a trial number. If this is a trial report, that itself is worth knowing.

3 · Its place in the literature

Who cites it

15 citing papers in PubMed, 25 citations in OpenAlex.

  1. Article
  2. Review
  3. Article
  4. Article
  5. Review
  6. Review
  7. International journal of molecular sciences · 2023
    Article
  8. Review
  9. Article
  10. Article
  11. Article
  12. Article
  13. Ferritins: furnishing proteins with iron.Journal of biological inorganic chemistry : JBIC : a publication of the Society of Biological Inorganic Chemistry · 2016
    Review
  14. Article
  15. Article
4 · The record

Corrections and comments

PubMed lists nothing against this paper. Absence here is not a guarantee, only a check that was made.

5 · Who and what money

Authors and funding

8 authors at 2 institutions in 1 country.

Huili YaoDepartment of Chemistry, ‡Del Shankel Structural Biology Center, and §Department of Molecular Biosciences and Center for Bioinformatics, University of Kansas , Multidisciplinary Research Building, 2030 Becker Drive, Lawrence, Kansas 66047, United States.
Huan Rui
Ritesh Kumar
Kate Eshelman
Scott Lovell
Kevin P Battaile
Wonpil Im
Mario Rivera
University of Kansas · USHauptman-Woodward Medical Research Institute · US

Funding

TRAFFICKING OF THE PLASMA MEMBRANE CA2+-ATPASE TO RAFTSP20RR017708 · NCRR · UNIVERSITY OF KANSAS LAWRENCE · PI HOLYOAK, TODD · 2002 to 2011
$20.1M
Protein Structure and FunctionP20GM103420 · NIGMS · UNIVERSITY OF KANSAS LAWRENCE · PI HANZLIK, ROBERT P · 2012 to 2012
$2.0M
Mechanisms & Energetics of Transmembrane-induced Signaling of Cytokine ReceptorsR01GM092950 · NIGMS · UNIVERSITY OF KANSAS LAWRENCE · PI IM, WONPIL · 2010 to 2014
$1.4M
NCRR NIH HHS 5P20RR017708-10NCRR NIH HHS P20 RR017708NIGMS NIH HHS 8 P20 GM103420-10)NIGMS NIH HHS P20 GM103420NIGMS NIH HHS R01 GM092950NIGMS NIH HHS R01-GM092950
6 · The paper itself

Abstract

X-ray crystallography, molecular dynamics (MD) simulations, and biochemistry were utilized to investigate the effect of introducing hydrophobic interactions in the 4-fold (N148L and Q151L) and B-pores (D34F) of Pseudomonas aeruginosa bacterioferritin B (BfrB) on BfrB function. The structures show only local structural perturbations and confirm the anticipated hydrophobic interactions. Surprisingly, structures obtained after soaking crystals in Fe2+-containing crystallization solution revealed that although iron loads into the ferroxidase centers of the mutants, the side chains of ferroxidase ligands E51 and H130 do not reorganize to bind the iron ions, as is seen in the wt BfrB structures. Similar experiments with a double mutant (C89S/K96C) prepared to introduce changes outside the pores show competent ferroxidase centers that function akin to those in wt BfrB. MD simulations comparing wt BfrB with the D34F and N148L mutants show that the mutants exhibit significantly reduced flexibility and reveal a network of concerted motions linking ferroxidase centers and 4-fold and B-pores, which are important for imparting ferroxidase centers in BfrB with the required flexibility to function efficiently. In agreement, the efficiency of Fe2+ oxidation and uptake of the 4-fold and B-pore mutants in solution is significantly compromised relative to wt or C89S/K96C BfrB. Finally, our structures show a large number of previously unknown iron binding sites in the interior cavity and B-pores of BfrB, which reveal in unprecedented detail conduits followed by iron and phosphate ions across the BfrB shell, as well as paths in the interior cavity that may facilitate nucleation of the iron phosphate mineral.

Indexed as

Amino Acid SubstitutionBacterial Outer Membrane ProteinsBacterial ProteinsCatalytic DomainCeruloplasminCrystallography, X-RayCytochrome b GroupFerritinsHydrophobic and Hydrophilic InteractionsIronModels, MolecularMutation, MissenseOxidation-ReductionProtein FoldingPseudomonas aeruginosaBacterial Outer Membrane ProteinsBacterial ProteinsbacterioferritinCeruloplasminCytochrome b GroupFerritinsIron

Identifiers

PMID25640193
PMCPMC4496005
OpenAlexW2120653920

What OpenQuestion holds

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Read underepoch 390

Registered trials

None linked

Read under generation 80e0d062 · epoch 390. Bibliography from PubMed, PubMed Central and OpenAlex; grants from NIH RePORTER; trial links from ClinicalTrials.gov; estimates, votes and beliefs from the OpenQuestion graph.