Evidence map›Paper›PMID 37684342›Full record

ArticleCommunications biology2023

Structural and functional analyses of Burkholderia pseudomallei BPSL1038 reveal a Cas-2/VapD nuclease sub-family.

Sofiyah Shaibullah, Nurshahirah Shuhaimi, De-Sheng Ker, Nurhikmah Mohd-Sharif, Kok Lian Ho, Aik-Hong Teh, Jitka Waterman, Thean-Hock Tang, Rui-Rui Wong, Sheila Nathan and 6 more

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

Article in Communications biology, 2023. 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
0.2field-weighted citation impact, top 41% 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, 1 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

16 authors at 8 institutions in 2 countries.

Sofiyah Shaibullah *Institute of Systems Biology, Universiti Kebangsaan Malaysia, UKM Bangi, 43600, Selangor, Malaysia.
Nurshahirah Shuhaimi *Institute of Systems Biology, Universiti Kebangsaan Malaysia, UKM Bangi, 43600, Selangor, Malaysia.
De-Sheng KerInstitute of Systems Biology, Universiti Kebangsaan Malaysia, UKM Bangi, 43600, Selangor, Malaysia.ORCID http://orcid.org/0000-0002-6564-4056
Nurhikmah Mohd-SharifInstitute of Systems Biology, Universiti Kebangsaan Malaysia, UKM Bangi, 43600, Selangor, Malaysia.
Kok Lian HoDepartment of Pathology, Faculty of Medicine and Health Sciences, Universiti Putra Malaysia, UPM Serdang, 43400, Selangor, Malaysia.ORCID http://orcid.org/0000-0002-5778-4729
Aik-Hong TehCentre for Chemical Biology, Universiti Sains Malaysia, Bayan Lepas, 11900, Penang, Malaysia.ORCID http://orcid.org/0000-0001-6365-574X
Jitka WatermanDiamond Light Source, Harwell Science & Innovation Campus, Didcot, Oxfordshire, OX11 0DE, UK.
Thean-Hock TangAdvanced Medical and Dental Institute, Universiti Sains Malaysia, Pulau Pinang, Malaysia.
Rui-Rui WongDepartment of Biological Sciences and Biotechnology, Faculty of Science and Technology, Universiti Kebangsaan Malaysia, UKM Bangi, 43600, Selangor, Malaysia.
Sheila NathanDepartment of Biological Sciences and Biotechnology, Faculty of Science and Technology, Universiti Kebangsaan Malaysia, UKM Bangi, 43600, Selangor, Malaysia.ORCID http://orcid.org/0000-0002-2132-2346
Rahmah MohamedDepartment of Biological Sciences and Biotechnology, Faculty of Science and Technology, Universiti Kebangsaan Malaysia, UKM Bangi, 43600, Selangor, Malaysia.
Min Jia NgMedicinal Mushroom Research Group (MMRG), Department of Molecular Medicine, Faculty of Medicine, University of Malaya, Kuala Lumpur, Malaysia.ORCID http://orcid.org/0000-0003-4756-0665
Shin-Yee FungMedicinal Mushroom Research Group (MMRG), Department of Molecular Medicine, Faculty of Medicine, University of Malaya, Kuala Lumpur, Malaysia.
Mohd Anuar JonetMalaysia Genome and Vaccine Institute, National Institutes of Biotechnology Malaysia (NIBM), Jalan Bangi, Kajang, 43000, Selangor, Malaysia.
Mohd Firdaus-RaihInstitute of Systems Biology, Universiti Kebangsaan Malaysia, UKM Bangi, 43600, Selangor, Malaysia.
Chyan Leong NgInstitute of Systems Biology, Universiti Kebangsaan Malaysia, UKM Bangi, 43600, Selangor, Malaysia. clng@ukm.edu.my.ORCID http://orcid.org/0000-0001-8590-7418
National University of Malaysia · MYUniversiti Sains Malaysia · MYUniversity of Malaya · MYDiamond Light Source · GBINTI International University · MYNational Institutes of Biotechnology Malaysia · MYUniversiti Putra Malaysia · MYUniversity of Cambridge · GB

Funding

No grant is acknowledged in the PubMed record.

6 · The paper itself

Abstract

Burkholderia pseudomallei is a highly versatile pathogen with ~25% of its genome annotated to encode hypothetical proteins. One such hypothetical protein, BPSL1038, is conserved across seven bacterial genera and 654 Burkholderia spp. Here, we present a 1.55 Å resolution crystal structure of BPSL1038. The overall structure folded into a modified βαββαβα ferredoxin fold similar to known Cas2 nucleases. The Cas2 equivalent catalytic aspartate (D11) pairs are conserved in BPSL1038 although B. pseudomallei has no known CRISPR associated system. Functional analysis revealed that BPSL1038 is a nuclease with endonuclease activity towards double-stranded DNA. The DNase activity is divalent ion independent and optimum at pH 6. The concentration of monovalent ions (Na

Indexed as

Burkholderia pseudomalleiArginineAspartic AcidCatalysisEndonucleasesArginineAspartic AcidEndonucleases

Identifiers

PMID37684342
PMCPMC10491678
OpenAlexW4386546354

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.