Evidence map›Paper›PMID 38108519›Full record

ArticleThe CRISPR journal2023

Differential Divalent Metal Binding by SpyCas9's RuvC Active Site Contributes to Nonspecific DNA Cleavage.

Sydney N Newsom, Duen-Shian Wang, Saadi Rostami, Isabelle Schuster, Hari Priya Parameshwaran, Yadin G Joseph, Peter Z Qin, Jin Liu, Rakhi Rajan

Open access · greenAbstract read
In one paragraph

Article in The CRISPR journal, 2023. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 3 papers.

0numbers the graph read from it
0cells of the map it votes in
3citing papers in PubMed
0.8field-weighted citation impact, top 26% 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

3 citing papers in PubMed, 5 citations in OpenAlex.

  1. Article
  2. A Cryptic Binding Pocket Regulates the Metal-Dependent Activity of Cas9.bioRxiv : the preprint server for biology · 2025
    Article
  3. 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 3 institutions in 1 country.

Sydney N NewsomDepartment of Chemistry and Biochemistry, Price Family Foundation Institute of Structural Biology, Stephenson Life Sciences Research Center, The University of Oklahoma, Norman, Oklahoma, USA.ORCID 0000-0003-2508-7811
Duen-Shian WangDepartment of Pharmaceutical Sciences, University of North Texas System College of Pharmacy, University of North Texas Health Science Center, Fort Worth, Texas, USA.
Saadi RostamiDepartment of Chemistry and Biochemistry, Price Family Foundation Institute of Structural Biology, Stephenson Life Sciences Research Center, The University of Oklahoma, Norman, Oklahoma, USA.
Isabelle SchusterDepartment of Chemistry, University of Southern California, Los Angeles, California, USA.
Hari Priya ParameshwaranDepartment of Chemistry and Biochemistry, Price Family Foundation Institute of Structural Biology, Stephenson Life Sciences Research Center, The University of Oklahoma, Norman, Oklahoma, USA.
Yadin G JosephDepartment of Chemistry and Biochemistry, Price Family Foundation Institute of Structural Biology, Stephenson Life Sciences Research Center, The University of Oklahoma, Norman, Oklahoma, USA.
Peter Z QinDepartment of Chemistry, University of Southern California, Los Angeles, California, USA.ORCID 0000-0003-3967-366X
Jin LiuDepartment of Pharmaceutical Sciences, University of North Texas System College of Pharmacy, University of North Texas Health Science Center, Fort Worth, Texas, USA.
Rakhi RajanDepartment of Chemistry and Biochemistry, Price Family Foundation Institute of Structural Biology, Stephenson Life Sciences Research Center, The University of Oklahoma, Norman, Oklahoma, USA.ORCID 0000-0002-8719-4412
University of Oklahoma · USUniversity of North Texas · USUniversity of Southern California · US

Funding

Structure-Function Studies of MsvR, a Methanogen-Specific Transcriptional RegulaP20GM103640 · NIGMS · UNIVERSITY OF OKLAHOMA · PI THOMAS, LEONARD M · 2012 to 2021
$20.4M
Protein Production and Characterization CoreP30GM145423 · NIGMS · UNIVERSITY OF OKLAHOMA · PI ANN H WEST · 2022 to 2026
$6.9M
Supplement: Acquisition of an NGC Discover 10 Pro Chromatography SystemR35GM145341 · NIGMS · UNIVERSITY OF SOUTHERN CALIFORNIA · PI Peter Z Qin · 2022 to 2026
$2.1M
Improvement of CRISPR-Cas9 specificity through allosteric modulationR15HL147265 · NHLBI · UNIVERSITY OF NORTH TEXAS HLTH SCI CTR · PI LIU, JIN · 2019 to 2019
$438k
De novo development of small CRISPR-Cas proteins using artificial intelligence algorithmsR21GM144860 · NIGMS · UNIVERSITY OF NORTH TEXAS HLTH SCI CTR · PI LIU, JIN · 2022 to 2023
$414k
NHLBI NIH HHS R15 HL147265NIGMS NIH HHS P20 GM103640NIGMS NIH HHS P30 GM145423NIGMS NIH HHS R21 GM144860NIGMS NIH HHS R35 GM145341
6 · The paper itself

Abstract

To protect against mobile genetic elements (MGEs), some bacteria and archaea have clustered regularly interspaced short palindromic repeats-CRISPR associated (CRISPR-Cas) adaptive immune systems. CRISPR RNAs (crRNAs) bound to Cas nucleases hybridize to MGEs based on sequence complementarity to guide the nucleases to cleave the MGEs. This programmable DNA cleavage has been harnessed for gene editing. Safety concerns include off-target and guide RNA (gRNA)-free DNA cleavages, both of which are observed in the Cas nuclease commonly used for gene editing,

Indexed as

DNA CleavageGene EditingCatalytic DomainCRISPR-Cas SystemsEndonucleasesRNA, Guide, CRISPR-Cas SystemsStreptococcus pyogenesEndonucleasesRNA, Guide, CRISPR-Cas Systems

Identifiers

PMID38108519
PMCPMC10753984
OpenAlexW4389899815

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.