Evidence map›Paper›PMID 25874989›Full record

ArticlePloS one2015

Functional characterization of the vitamin K2 biosynthetic enzyme UBIAD1.

Yoshihisa Hirota, Kimie Nakagawa, Natsumi Sawada, Naoko Okuda, Yoshitomo Suhara, Yuri Uchino, Takashi Kimoto, Nobuaki Funahashi, Maya Kamao, Naoko Tsugawa and 1 more

Open access · goldAbstract read
In one paragraph

Article in PloS one, 2015. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 32 papers.

0numbers the graph read from it
0cells of the map it votes in
32citing papers in PubMed
3.9field-weighted citation impact, top 7% 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

32 citing papers in PubMed, 64 citations in OpenAlex.

  1. Review
  2. Article
  3. Article
  4. Article
  5. Article
  6. Review
  7. Allosteric regulation of UBIAD1 trafficking from ER to Golgi revealed by chemical genetic screening.Proceedings of the National Academy of Sciences of the United States of America · 2025
    Article
  8. Increasing Vitamin KJournal of agricultural and food chemistry · 2024
    Article
  9. Review
  10. Vitamin K1 Intake and Incident Diabetes in the Danish Diet, Cancer, and Health Study.The Journal of clinical endocrinology and metabolism · 2023
    Article
  11. Article
  12. Review
  13. Article
  14. Post-Translational Regulation of HMG CoA Reductase.Cold Spring Harbor perspectives in biology · 2022
    Review
  15. Autophagy in the normal and diseased cornea.Experimental eye research · 2022
    Review
  16. Article
  17. Article
  18. Article
  19. Article
  20. 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

11 authors at 3 institutions in 1 country.

Yoshihisa HirotaDepartment of Hygienic Sciences, Kobe Pharmaceutical University, Kobe, Japan; Faculty of Pharmaceutical Sciences, Suzuka University of Medical Science, Suzuka, Japan.
Kimie NakagawaDepartment of Hygienic Sciences, Kobe Pharmaceutical University, Kobe, Japan.
Natsumi SawadaDepartment of Hygienic Sciences, Kobe Pharmaceutical University, Kobe, Japan.
Naoko OkudaDepartment of Hygienic Sciences, Kobe Pharmaceutical University, Kobe, Japan.
Yoshitomo SuharaDepartment of Bioscience and Engineering, Shibaura Institute of Technology, Saitama, Japan.
Yuri UchinoDepartment of Hygienic Sciences, Kobe Pharmaceutical University, Kobe, Japan.
Takashi KimotoDepartment of Hygienic Sciences, Kobe Pharmaceutical University, Kobe, Japan.
Nobuaki FunahashiDepartment of Hygienic Sciences, Kobe Pharmaceutical University, Kobe, Japan.
Maya KamaoDepartment of Hygienic Sciences, Kobe Pharmaceutical University, Kobe, Japan.
Naoko TsugawaDepartment of Hygienic Sciences, Kobe Pharmaceutical University, Kobe, Japan.
Toshio OkanoDepartment of Hygienic Sciences, Kobe Pharmaceutical University, Kobe, Japan.
Kobe Pharmaceutical University · JPShibaura Institute of Technology · JPSuzuka University of Medical Science · JP

Funding

No grant is acknowledged in the PubMed record.

6 · The paper itself

Abstract

UbiA prenyltransferase domain-containing protein 1 (UBIAD1) plays a significant role in vitamin K2 (MK-4) synthesis. We investigated the enzymological properties of UBIAD1 using microsomal fractions from Sf9 cells expressing UBIAD1 by analysing MK-4 biosynthetic activity. With regard to UBIAD1 enzyme reaction conditions, highest MK-4 synthetic activity was demonstrated under basic conditions at a pH between 8.5 and 9.0, with a DTT ≥0.1 mM. In addition, we found that geranyl pyrophosphate and farnesyl pyrophosphate were also recognized as a side-chain source and served as a substrate for prenylation. Furthermore, lipophilic statins were found to directly inhibit the enzymatic activity of UBIAD1. We analysed the aminoacid sequences homologies across the menA and UbiA families to identify conserved structural features of UBIAD1 proteins and focused on four highly conserved domains. We prepared protein mutants deficient in the four conserved domains to evaluate enzyme activity. Because no enzyme activity was detected in the mutants deficient in the UBIAD1 conserved domains, these four domains were considered to play an essential role in enzymatic activity. We also measured enzyme activities using point mutants of the highly conserved aminoacids in these domains to elucidate their respective functions. We found that the conserved domain I is a substrate recognition site that undergoes a structural change after substrate binding. The conserved domain II is a redox domain site containing a CxxC motif. The conserved domain III is a hinge region important as a catalytic site for the UBIAD1 enzyme. The conserved domain IV is a binding site for Mg2+/isoprenyl side-chain. In this study, we provide a molecular mapping of the enzymological properties of UBIAD1.

Indexed as

Amino Acid SequenceAnimalsBiosynthetic PathwaysCell LineCholesterolDimethylallyltranstransferaseGene ExpressionHumansInsectaMevalonic AcidMicrosomesMolecular Sequence DataPoint MutationProtein PrenylationProtein Structure, TertiarySequence AlignmentCholesterolDimethylallyltranstransferaseMevalonic AcidUBIAD1 protein, humanVitamin K 2

Identifiers

PMID25874989
PMCPMC4398444
OpenAlexW2006001326

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.