Evidence map›Paper›PMID 19416896›Full record

ArticleProceedings of the National Academy of Sciences of the United States of America2009

Folding energy landscape of cytochrome cb562.

Tetsunari Kimura, Jennifer C Lee, Harry B Gray, Jay R Winkler

Abstract read
In one paragraph

Article in Proceedings of the National Academy of Sciences of the United States of America, 2009. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 10 papers.

0numbers the graph read from it
0cells of the map it votes in
10citing papers in PubMed
–field-weighted citation impact
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

10 citing papers in PubMed.

  1. Unfolding cytochromes c-bJournal of inorganic biochemistry · 2020
    Article
  2. Funneled angle landscapes for helical proteins.Journal of inorganic biochemistry · 2020
    Article
  3. Domain-swapped cytochromeChemical science · 2015
    Article
  4. Fast protein folding kinetics.Quarterly reviews of biophysics · 2014
    Review
  5. Intrachain contact dynamics in unfolded cytochrome cb562.The journal of physical chemistry. B · 2013
    Article
  6. Snapshots of a protein folding intermediate.Proceedings of the National Academy of Sciences of the United States of America · 2013
    Article
  7. Article
  8. Article
  9. Direct visualization reveals dynamics of a transient intermediate during protein assembly.Proceedings of the National Academy of Sciences of the United States of America · 2011
    Article
  10. Review
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

4 authors.

Tetsunari KimuraBeckman Institute, California Institute of Technology, Pasadena, CA 91125-7400, USA.
Jennifer C Lee
Harry B Gray
Jay R Winkler

Funding

ELECTRON-TRANSFER PROCESSES IN IRON AND COPPER PROTEINSR01DK019038 · NIDDK · CALIFORNIA INSTITUTE OF TECHNOLOGY · PI GRAY, HARRY B, WINKLER, JAY R · 1986 to 2023
$7.0M
Elucidating Protein Folding MechanismsR01GM068461 · NIGMS · CALIFORNIA INSTITUTE OF TECHNOLOGY · PI WINKLER, JAY R · 2003 to 2010
$2.2M
ELECTRON TRANSFER PROCESSES IN IRON AND COPPER PROTEINSR37DK019038 · NIDDK · CALIFORNIA INSTITUTE OF TECHNOLOGY · PI GRAY, HARRY B · 1996 to 2003
$1.2M
NIDDK NIH HHS DK019038NIDDK NIH HHS R01 DK019038NIDDK NIH HHS R37 DK019038NIGMS NIH HHS GM068461NIGMS NIH HHS R01 GM068461
6 · The paper itself

Abstract

Cytochrome cb(562) is a variant of an Escherichia coli four-helix bundle b-type heme protein in which the porphyrin prosthetic group is covalently ligated to the polypeptide near the terminus of helix 4. Studies from other laboratories have shown that the apoprotein folds rapidly without the formation of intermediates, whereas the holoprotein loses heme before native structure can be attained. Time-resolved fluorescence energy transfer (TRFET) measurements of cytochrome cb(562) refolding triggered using an ultrafast continuous-flow mixer (150 micros dead time) reveal that heme attachment to the polypeptide does not interfere with rapid formation of the native structure. Analyses of the TRFET data produce distributions of Trp-59-heme distances in the protein before, during, and after refolding. Characterization of the moments and time evolution of these distributions provides compelling evidence for a refolding mechanism that does not involve significant populations of intermediates. These observations suggest that the cytochrome b(562) folding energy landscape is minimally frustrated and able to tolerate the introduction of substantial perturbations (i.e., the heme prosthetic group) without the formation of deep misfolded traps.

Indexed as

BiochemistryCytochrome b GroupDatabases, ProteinEscherichia coliEscherichia coli ProteinsFluorescence Resonance Energy TransferGuanidineHemeKineticsModels, StatisticalMolecular ConformationProtein ConformationProtein DenaturationProtein FoldingProtein Structure, Secondarycytochrome b562, E coliCytochrome b GroupEscherichia coli ProteinsGuanidineHeme

Identifiers

PMID19416896
PMCPMC2683080

What OpenQuestion holds

Textmetadata
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.