Evidence map›Paper›PMID 31402219›Full record

ArticleStructure (London, England : 1993)2019

Completion of the Vimentin Rod Domain Structure Using Experimental Restraints: A New Tool for Exploring Intermediate Filament Assembly and Mutations.

David D Gae, Madhu S Budamagunta, John F Hess, Robert M McCarrick, Gary A Lorigan, Paul G FitzGerald, John C Voss

Open access · bronzeAbstract read
In one paragraph

Article in Structure (London, England : 1993), 2019. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 4 papers.

0numbers the graph read from it
0cells of the map it votes in
4citing papers in PubMed
0.5field-weighted citation impact, top 39% 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

4 citing papers in PubMed, 8 citations in OpenAlex.

  1. Metal Ion Binding of Vimentin Tail Domain Fragments.Chembiochem : a European journal of chemical biology · 2026
    Article
  2. Article
  3. Article
  4. Platinum(II)Proceedings of the National Academy of Sciences of the United States of America · 2021
    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

7 authors at 3 institutions in 1 country.

David D GaeDepartment of Surgery, School of Medicine, University of California San Francisco, San Francisco, CA 94118, USA.
Madhu S BudamaguntaDepartment of Biochemistry & Molecular Medicine, School of Medicine, University of California Davis, Davis, CA 95616, USA.
John F HessDepartment of Cell Biology and Human Anatomy, School of Medicine, University of California Davis, Davis, CA 95616, USA.
Robert M McCarrickDepartment of Chemistry and Biochemistry, Miami University, Oxford, OH 45056, USA.
Gary A LoriganDepartment of Chemistry and Biochemistry, Miami University, Oxford, OH 45056, USA.
Paul G FitzGeraldDepartment of Cell Biology and Human Anatomy, School of Medicine, University of California Davis, Davis, CA 95616, USA. Electronic address: pgfitzgerald@ucdavis.edu.
John C VossDepartment of Biochemistry & Molecular Medicine, School of Medicine, University of California Davis, Davis, CA 95616, USA. Electronic address: jcvoss@ucdavis.edu.
University of California, Davis · USMiami University · USUniversity of California, San Francisco · US

Funding

VISION RESEARCH CORE GRANTP30EY012576 · NEI · UNIVERSITY OF CALIFORNIA DAVIS · PI LISA M OAKES · 1999 to 2026
$18.9M
EPR Spectroscopic Studies of Membrane Proteins-Diversity SupplementR35GM126935 · NIGMS · MIAMI UNIVERSITY OXFORD · PI GARY A LORIGAN · 2018 to 2026
$3.3M
SDSL-EPR STUDY OF INTERMEDIATE FILAMENT STRUCTURER01EY015560 · NEI · UNIVERSITY OF CALIFORNIA AT DAVIS · PI FITZGERALD, PAUL GILLESPIE · 2006 to 2015
$3.0M
EXTRAMURAL RESEARCH FACILITIES CONSTRUCTIONC06RR012088 · NCRR · UNIVERSITY OF CALIFORNIA DAVIS · PI CURRY, FITZ-ROY E · 1996 to 1996
–
NCRR NIH HHS C06 RR012088NEI NIH HHS P30 EY012576NEI NIH HHS R01 EY015560NIGMS NIH HHS R35 GM126935
6 · The paper itself

Abstract

Electron paramagnetic resonance (EPR) spectroscopy of full-length vimentin and X-ray crystallography of vimentin peptides has provided concordant structural data for nearly the entire central rod domain of the protein. In this report, we use a combination of EPR spectroscopy and molecular modeling to determine the structure and dynamics of the missing region and unite the separate elements into a single structure. Validation of the linker 1-2 (L1-2) modeling approach is demonstrated by the close correlation between EPR and X-ray data in the previously solved regions. Importantly, molecular dynamic (MD) simulation of the constructed model agrees with spin label motion as determined by EPR. Furthermore, MD simulation shows L1-2 heterogeneity, with a concerted switching of states among the dimer chains. These data provide the first ever experimentally driven model of a complete intermediate filament rod domain, providing research tools for further modeling and assembly studies.

Indexed as

MutationElectron Spin Resonance SpectroscopyHumansModels, MolecularMolecular Dynamics SimulationProtein DomainsProtein Structure, SecondarySpin LabelsVimentinSpin LabelsVimentinVIM protein, humanelectron paramagnetic resonanceEPRESRintermediate filamentsmolecular dynamicsmolecular modelingsite-directed spin labelingUCSF chimera: macromolecular structurevimentin

Identifiers

PMID31402219
PMCPMC6774864
OpenAlexW2968009650

What OpenQuestion holds

Textmetadata
LicenceTDM
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.