Evidence map›Paper›PMID 38387709›Full record

ArticleMethods (San Diego, Calif.)2024

Generation of site-specifically labelled fluorescent human XPA to investigate DNA binding dynamics during nucleotide excision repair.

Sahiti Kuppa, Elliot Corless, Colleen C Caldwell, Maria Spies, Edwin Antony

Open access · greenAbstract read
In one paragraph

Article in Methods (San Diego, Calif.), 2024. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Not yet cited in PubMed.

0numbers the graph read from it
0cells of the map it votes in
0citing papers in PubMed
0.5field-weighted citation impact, top 38% 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

0 citing papers in PubMed, 2 citations in OpenAlex.

No citing paper in PubMed yet.

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

5 authors at 2 institutions in 1 country.

Sahiti KuppaDepartment of Biochemistry and Molecular Biology, Saint Louis University School of Medicine, St. Louis, MO 63104, USA.
Elliot CorlessDepartment of Biochemistry and Molecular Biology, Saint Louis University School of Medicine, St. Louis, MO 63104, USA.
Colleen C CaldwellDepartment of Biochemistry and Molecular Biology, University of Iowa Carver College of Medicine, Iowa City, IA 52242, USA.
Maria SpiesDepartment of Biochemistry and Molecular Biology, University of Iowa Carver College of Medicine, Iowa City, IA 52242, USA.
Edwin AntonyDepartment of Biochemistry and Molecular Biology, Saint Louis University School of Medicine, St. Louis, MO 63104, USA. Electronic address: edwin.antony@health.slu.edu.
Saint Louis University · USUniversity of Iowa · US

Funding

Assembly and Dynamics of Molecular Machines in Genome MaintenanceR35GM131704 · NIGMS · UNIVERSITY OF IOWA · PI Maria Spies · 2019 to 2026
$3.9M
Coordination of DNA Metabolism by Replication Protein AR35GM149320 · NIGMS · SAINT LOUIS UNIVERSITY · PI Edwin Antony · 2023 to 2026
$2.3M
Acquisition of an Optima Analytical UltracentrifugeS10OD030343 · OD · SAINT LOUIS UNIVERSITY · PI ANTONY, EDWIN · 2021 to 2021
$515k
Role of nuclear chaperones in genomic instability and carcinogenesisK00CA274696 · NCI · COLUMBIA UNIVERSITY HEALTH SCIENCES · PI Sahiti Kuppa · 2023 to 2026
$377k
Role of nuclear chaperones in genomic instability and carcinogenesisF99CA274696 · NCI · SAINT LOUIS UNIVERSITY · PI KUPPA, SAHITI · 2022 to 2022
$34k
NCI NIH HHS F99 CA274696NCI NIH HHS K00 CA274696NIGMS NIH HHS R35 GM131704NIGMS NIH HHS R35 GM149320NIH HHS S10 OD030343
6 · The paper itself

Abstract

Nucleotide excision repair (NER) promotes genomic integrity by removing bulky DNA adducts introduced by external factors such as ultraviolet light. Defects in NER enzymes are associated with pathological conditions such as Xeroderma Pigmentosum, trichothiodystrophy, and Cockayne syndrome. A critical step in NER is the binding of the Xeroderma Pigmentosum group A protein (XPA) to the ss/ds DNA junction. To better capture the dynamics of XPA interactions with DNA during NER we have utilized the fluorescence enhancement through non-canonical amino acids (FEncAA) approach. 4-azido-L-phenylalanine (4AZP or pAzF) was incorporated at Arg-158 in human XPA and conjugated to Cy3 using strain-promoted azide-alkyne cycloaddition. The resulting fluorescent XPA protein (XPA

Indexed as

DNA DamageDNA RepairDNAExcision RepairHumansNucleotidesProtein BindingUltraviolet RaysXeroderma Pigmentosum Group A ProteinDNANucleotidesXeroderma Pigmentosum Group A ProteinXPA protein, humanDNA Binding ProteinsFluorescence Enhancement through non canonical Amino Acids (FEncAA)Genetic code expansion (GCE)Nucleotide Excision Repair (NER)Protein DynamicsReplication Protein A (RPA)Site-Specific LabelingXeroderma Pigmentosum group A (XPA)

Identifiers

PMID38387709
PMCPMC10960328
OpenAlexW4391951730

What Socratic 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 Socratic graph.