Evidence map›Paper›PMID 25614628›Full record

ArticleThe Journal of biological chemistry2015

Identification and characterization of a novel prokaryotic peptide: N-glycosidase from Elizabethkingia meningoseptica.

Guiqin Sun, Xiang Yu, Celimuge Bao, Lei Wang, Meng Li, Jianhua Gan, Di Qu, Jinbiao Ma, Li Chen

Open access · hybridAbstract read
In one paragraph

Article in The Journal of biological chemistry, 2015. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 24 papers.

0numbers the graph read from it
0cells of the map it votes in
24citing papers in PubMed
1.1field-weighted citation impact, top 23% 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

24 citing papers in PubMed, 41 citations in OpenAlex.

  1. Article
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  4. Review
  5. Article
  6. PNGaseL fromRoyal Society open science · 2025
    Article
  7. Article
  8. Article
  9. Do I Need to Trypsin Digest Before Releasing IgG Glycans With PNGase-F?Journal of biomolecular techniques : JBT · 2023
    Article
  10. Article
  11. PlantProceedings of the National Academy of Sciences of the United States of America · 2022
    Article
  12. Article
  13. Article
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  15. Article
  16. Article
  17. Review
  18. Article
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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.

Guiqin SunFrom the Key Laboratory of Medical Molecular Virology, Ministry of Education and Health, Shanghai Medical College, Fudan University, Shanghai 200032, China, Zhejiang Chinese Medical University, Hangzhou 310053, China.
Xiang Yuthe State Key Laboratory of Genetic Engineering, Collaborative Innovation Center of Genetics and Development, School of Life Sciences, Fudan University, Shanghai 200438, China.
Celimuge BaoFrom the Key Laboratory of Medical Molecular Virology, Ministry of Education and Health, Shanghai Medical College, Fudan University, Shanghai 200032, China.
Lei WangFrom the Key Laboratory of Medical Molecular Virology, Ministry of Education and Health, Shanghai Medical College, Fudan University, Shanghai 200032, China.
Meng LiFrom the Key Laboratory of Medical Molecular Virology, Ministry of Education and Health, Shanghai Medical College, Fudan University, Shanghai 200032, China.
Jianhua Ganthe Department of Physiology and Biophysics, School of Life Sciences, Fudan University, Shanghai 200433, China, and.
Di QuFrom the Key Laboratory of Medical Molecular Virology, Ministry of Education and Health, Shanghai Medical College, Fudan University, Shanghai 200032, China.
Jinbiao Mathe State Key Laboratory of Genetic Engineering, Collaborative Innovation Center of Genetics and Development, School of Life Sciences, Fudan University, Shanghai 200438, China, majb@fudan.edu.cn.
Li ChenFrom the Key Laboratory of Medical Molecular Virology, Ministry of Education and Health, Shanghai Medical College, Fudan University, Shanghai 200032, China, lichen_bk@fudan.edu.cn.
Shanghai Medical College of Fudan University · CNState Key Laboratory of Genetic EngineeringFudan University · CNZhejiang Chinese Medical University · CN

Funding

No grant is acknowledged in the PubMed record.

6 · The paper itself

Abstract

Peptide:N-glycosidase (PNGase) F, the first PNGase identified in prokaryotic cells, catalyzes the removal of intact asparagine-linked oligosaccharide chains from glycoproteins and/or glycopeptides. Since its discovery in 1984, PNGase F has remained as the sole prokaryotic PNGase. Recently, a novel gene encoding a protein with a predicted PNGase domain was identified from a clinical isolate of Elizabethkingia meningoseptica. In this study, the candidate protein was expressed in vitro and was subjected to biochemical and structural analyses. The results revealed that it possesses PNGase activity and has substrate specificity different from that of PNGase F. The crystal structure of the protein was determined at 1.9 Å resolution. Structural comparison with PNGase F revealed a relatively larger glycan-binding groove in the catalytic domain and an additional bowl-like domain with unknown function at the N terminus of the candidate protein. These structural and functional analyses indicated that the candidate protein is a novel prokaryotic N-glycosidase. The protein has been named PNGase F-II.

Indexed as

Amino Acid SequenceBase SequenceCrystallography, X-RayFlavobacteriaceaeGlycosylationMolecular Sequence DataOligodeoxyribonucleotidesPeptide-N4-(N-acetyl-beta-glucosaminyl) Asparagine AmidaseSequence Homology, Amino AcidSubstrate SpecificityOligodeoxyribonucleotidesPeptide-N4-(N-acetyl-beta-glucosaminyl) Asparagine AmidaseBacteriaCrystal StructureEnzymeGlycoproteinN-Linked GlycosylationPeptide:N-Glycosidase (PNGase), PNGase F, Glycosylation, Deglycosylation, Glycoprotein, Crystal Structure

Identifiers

PMID25614628
PMCPMC4367255
OpenAlexW2147949504

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.