Evidence map›Paper›PMID 25658953›Full record

ArticlePloS one2015

Structural and biochemical studies of a moderately thermophilic exonuclease I from Methylocaldum szegediense.

Li Fei, SiSi Tian, Ruth Moysey, Mihaela Misca, John J Barker, Myron A Smith, Paul A McEwan, Ewa S Pilka, Lauren Crawley, Tom Evans and 1 more

Abstract 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 1 paper.

0numbers the graph read from it
0cells of the map it votes in
1citing papers in PubMed
–field-weighted citation impact
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

1 citing paper in PubMed.

  1. 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.

Li FeiNew England Biolabs Shanghai R&D Center, Building 5, 917 Halei Road, Pudong District, Shanghai, China.
SiSi TianNew England Biolabs Shanghai R&D Center, Building 5, 917 Halei Road, Pudong District, Shanghai, China.
Ruth MoyseyOxford Nanopore Technologies Ltd., Edmund Cartwright House, 4 Robert Robinson Avenue Oxford Science Park, Oxford OX4, United Kingdom.
Mihaela MiscaOxford Nanopore Technologies Ltd., Edmund Cartwright House, 4 Robert Robinson Avenue Oxford Science Park, Oxford OX4, United Kingdom.
John J BarkerEvotec (UK) Ltd, 114 Innovation Drive, Milton Park, Abingdon, Oxfordshire OX14 4RZ, United Kingdom.
Myron A SmithEvotec (UK) Ltd, 114 Innovation Drive, Milton Park, Abingdon, Oxfordshire OX14 4RZ, United Kingdom.
Paul A McEwanEvotec (UK) Ltd, 114 Innovation Drive, Milton Park, Abingdon, Oxfordshire OX14 4RZ, United Kingdom.
Ewa S PilkaEvotec (UK) Ltd, 114 Innovation Drive, Milton Park, Abingdon, Oxfordshire OX14 4RZ, United Kingdom.
Lauren CrawleyEvotec (UK) Ltd, 114 Innovation Drive, Milton Park, Abingdon, Oxfordshire OX14 4RZ, United Kingdom.
Tom EvansNew England Biolabs, 240 County Road, Ipswich, MA 01938-2723, United States of America.
Dapeng SunNew England Biolabs Shanghai R&D Center, Building 5, 917 Halei Road, Pudong District, Shanghai, China.

Funding

No grant is acknowledged in the PubMed record.

6 · The paper itself

Abstract

A novel exonuclease, designated as MszExo I, was cloned from Methylocaldum szegediense, a moderately thermophilic methanotroph. It specifically digests single-stranded DNA in the 3' to 5' direction. The protein is composed of 479 amino acids, and it shares 47% sequence identity with E. coli Exo I. The crystal structure of MszExo I was determined to a resolution of 2.2 Å and it aligns well with that of E. coli Exo I. Comparative studies revealed that MszExo I and E. coli Exo I have similar metal ion binding affinity and similar activity at mesophilic temperatures (25-47°C). However, the optimum working temperature of MszExo I is 10°C higher, and the melting temperature is more than 4°C higher as evaluated by both thermal inactivation assays and DSC measurements. More importantly, two thermal transitions during unfolding of MszExo I were monitored by DSC while only one transition was found in E. coli Exo I. Further analyses showed that magnesium ions not only confer structural stability, but also affect the unfolding of MszExo I. MszExo I is the first reported enzyme in the DNA repair systems of moderately thermophilic bacteria, which are predicted to have more efficient DNA repair systems than mesophilic ones.

Indexed as

Bacterial ProteinsCloning, MolecularCrystallography, X-RayDNA RepairExodeoxyribonucleasesHot TemperatureMethylococcaceaeBacterial Proteinsexodeoxyribonuclease IExodeoxyribonucleases

Identifiers

PMID25658953
PMCPMC4319927

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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.