Evidence map›Paper›PMID 28955971›Full record

ArticleBiochemistry and biophysics reports2016

A specific single-stranded DNA induces a distinct conformational change in the nucleoid-associated protein HU.

Yuya Nishida, Teppei Ikeya, Tsutomu Mikawa, Jin Inoue, Yutaka Ito, Yasunori Shintani, Ryoji Masui, Seiki Kuramitsu, Seiji Takashima

Open access · goldAbstract read
PubMed Full text at PMC Publisher
In one paragraph

Article in Biochemistry and biophysics reports, 2016. 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
–field-weighted citation impact, top 92% 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, 0 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

9 authors at 4 institutions in 1 country.

Yuya NishidaGraduate School of Frontier Biosciences, Osaka University, 1-3 Yamadaoka, Suita-shi, Osaka 565-0871, Japan.
Teppei IkeyaDepartment of Chemistry, Graduate School of Science and Engineering, Tokyo Metropolitan University, 1-1 Minami-Osawa, Hachioji-shi, Tokyo 192-0373, Japan.
Tsutomu MikawaDepartment of Chemistry, Graduate School of Science and Engineering, Tokyo Metropolitan University, 1-1 Minami-Osawa, Hachioji-shi, Tokyo 192-0373, Japan.
Jin InoueDepartment of Chemistry, Graduate School of Science and Engineering, Tokyo Metropolitan University, 1-1 Minami-Osawa, Hachioji-shi, Tokyo 192-0373, Japan.
Yutaka ItoDepartment of Chemistry, Graduate School of Science and Engineering, Tokyo Metropolitan University, 1-1 Minami-Osawa, Hachioji-shi, Tokyo 192-0373, Japan.
Yasunori ShintaniDepartment of Medical Biochemistry, Osaka University Graduate School of Medicine, 2-2 Yamadaoka, Suita-shi, Osaka 565-0871, Japan.
Ryoji MasuiDivision of Biology and Geosciences, Graduate School of Science, Osaka City University, 3-3-138 Sugimoto, Sumiyoshi-ku, Osaka-shi 558-8585, Japan.
Seiki KuramitsuGraduate School of Frontier Biosciences, Osaka University, 1-3 Yamadaoka, Suita-shi, Osaka 565-0871, Japan.
Seiji TakashimaGraduate School of Frontier Biosciences, Osaka University, 1-3 Yamadaoka, Suita-shi, Osaka 565-0871, Japan.
Osaka University · JPTokyo Metropolitan University · JPJapan Science and Technology Agency · JPOsaka City University · JP

Funding

No grant is acknowledged in the PubMed record.

6 · The paper itself

Abstract

In prokaryotic cells, genomic DNA forms an aggregated structure with various nucleoid-associated proteins (NAPs). The functions of genomic DNA are cooperatively modulated by NAPs, of which HU is considered to be one of the most important. HU binds double-stranded DNA (dsDNA) and serves as a structural modulator in the genome architecture. It plays important roles in diverse DNA functions, including replication, segregation, transcription and repair. Interestingly, it has been reported that HU also binds single-stranded DNA (ssDNA) regardless of sequence. However, structural analysis of HU with ssDNA has been lacking, and the functional relevance of this binding remains elusive. In this study, we found that ssDNA induced a significant change in the secondary structure of

Indexed as

CD, circular dichroismCircular dichroismdsDNA, double-stranded DNAHSQC, heteronuclear single quantum coherenceHUNAP, nucleoid-associated proteinNMRNMR, nuclear magnetic resonanceNucleoid-associated proteinSingle-stranded DNASLBP, stem-loop binding protein.ssDNA, single-stranded DNAThermusTtHU, Thermus thermophilus HU

Identifiers

PMID28955971
PMCPMC5613972
OpenAlexW2531943259

What OpenQuestion holds

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LicenceCC BY
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Registered trials

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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.