Evidence map›Paper›PMID 37302550›Full record

ArticleThe Journal of biological chemistry2023

A recombinant technique for mapping functional sites of heterotrimeric collagen helices: Collagen IV CB3 fragment as a prototype for integrin binding.

Sergei P Boudko, Elizabeth H Konopka, Woojin Kim, Yuki Taga, Kazunori Mizuno, Timothy A Springer, Billy G Hudson, Terence I Moy, Fu-Yang Lin

Open access · goldAbstract read
In one paragraph

Article in The Journal of biological chemistry, 2023. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 5 papers.

0numbers the graph read from it
0cells of the map it votes in
5citing papers in PubMed
2.4field-weighted citation impact, top 11% 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

5 citing papers in PubMed, 10 citations in OpenAlex.

  1. Article
  2. Collagen IV biosynthesis: Intracellular choreography of post-translational modifications.Matrix biology : journal of the International Society for Matrix Biology · 2025
    Review
  3. Around the collagen triple helix: an introduction to studying associated genetic and acquired diseases.Matrix biology : journal of the International Society for Matrix Biology · 2025
    Review
  4. Review
  5. Decoding collagen's thermally induced unfolding and refolding pathways.Proceedings of the National Academy of Sciences of the United States of America · 2025
    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

9 authors at 4 institutions in 2 countries.

Sergei P BoudkoDivision of Nephrology and Hypertension, Department of Medicine, Vanderbilt University Medical Center, Nashville, Tennessee, USA; Center for Matrix Biology, Vanderbilt University Medical Center, Nashville, Tennessee, USA; Department of Biochemistry, Vanderbilt University, Nashville, Tennessee, USA. Electronic address: sergey.budko@vumc.org.
Elizabeth H KonopkaMorphic Therapeutic, Inc, Waltham, Massachusetts, USA.
Woojin KimMorphic Therapeutic, Inc, Waltham, Massachusetts, USA.
Yuki TagaNippi Research Institute of Biomatrix, Toride, Ibaraki, Japan.
Kazunori MizunoNippi Research Institute of Biomatrix, Toride, Ibaraki, Japan.
Timothy A SpringerDepartment of Biological Chemistry and Molecular Pharmacology, Program in Cellular and Molecular Medicine, Boston Children's Hospital, Harvard Medical School, Boston, Massachusetts, USA.
Billy G HudsonDivision of Nephrology and Hypertension, Department of Medicine, Vanderbilt University Medical Center, Nashville, Tennessee, USA; Center for Matrix Biology, Vanderbilt University Medical Center, Nashville, Tennessee, USA; Department of Biochemistry, Vanderbilt University, Nashville, Tennessee, USA; Department of Pathology, Microbiology, and Immunology, Vanderbilt University Medical Center, Nashville, Tennessee, USA; Department of Cell and Developmental Biology, Vanderbilt University Medical Center, Nashville, Tennessee, USA; Vanderbilt-Ingram Cancer Center, Vanderbilt University, Nashville, Tennessee, USA; Vanderbilt Institute of Chemical Biology, Vanderbilt University, Nashville, Tennessee, USA.
Terence I MoyMorphic Therapeutic, Inc, Waltham, Massachusetts, USA.
Fu-Yang LinMorphic Therapeutic, Inc, Waltham, Massachusetts, USA. Electronic address: albert.lin@morphictx.com.
Japan Institute of Leather Research · JPVanderbilt University · USBoston Children's Hospital · USMorpho (United States) · US

Funding

STUDIES ON THE STRUCTURE OF BASEMENT MEMBRANESR01DK018381 · NIDDK · VANDERBILT UNIVERSITY MEDICAL CENTER · PI Sergey Petrovich Budko, BILLY GERALD HUDSON · 1986 to 2026
$12.4M
ChimeraX -- Next Generation Visualization and Analysis Software for Multiscale ModelingR01GM129325 · NIGMS · UNIVERSITY OF CALIFORNIA, SAN FRANCISCO · PI FERRIN, THOMAS E · 2018 to 2025
$5.2M
Molecular Pathobiology of Alport SyndromeR01DK131101 · NIDDK · VANDERBILT UNIVERSITY MEDICAL CENTER · PI BUDKO, SERGEY PETROVICH, HUDSON, BILLY GERALD · 2022 to 2025
$2.1M
Molecular Pathobiology of Alport SyndromeR56DK131101 · NIDDK · VANDERBILT UNIVERSITY MEDICAL CENTER · PI BUDKO, SERGEY PETROVICH, HUDSON, BILLY GERALD · 2021 to 2021
$100k
NIDDK NIH HHS R01 DK018381NIDDK NIH HHS R01 DK131101NIDDK NIH HHS R56 DK131101NIGMS NIH HHS R01 GM129325
6 · The paper itself

Abstract

Collagen superfamily of proteins is a major component of the extracellular matrix. Defects in collagens underlie the cause of nearly 40 human genetic diseases in millions of people worldwide. Pathogenesis typically involves genetic alterations of the triple helix, a hallmark structural feature that bestows exceptional mechanical resistance to tensile forces and a capacity to bind a plethora of macromolecules. Yet, there is a paramount knowledge gap in understanding the functionality of distinct sites along the triple helix. Here, we present a recombinant technique to produce triple helical fragments for functional studies. The experimental strategy utilizes the unique capacity of the NC2 heterotrimerization domain of collagen IX to drive three α-chain selection and registering the triple helix stagger. For proof of principle, we produced and characterized long triple helical fragments of collagen IV that were expressed in a mammalian system. The heterotrimeric fragments encompassed the CB3 trimeric peptide of collagen IV, which harbors the binding motifs for α

Indexed as

Collagen Type IVIntegrinsProtein MultimerizationAnimalsBinding SitesHumansMutationProtein BindingProtein DomainsProtein Structure, SecondaryCollagen Type IVIntegrinsatomic force microscopybasement membraneCB3 fragmentCD spectroscopycollagen IVcystine knotextracellular matrixheterotrimerintegrinprotein foldingprotein self-assemblyreceptorrecombinant protein expressiontriple helix

Identifiers

PMID37302550
PMCPMC10404678
OpenAlexW4380203807

What OpenQuestion holds

Textmetadata
LicenceCC BY
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.