Evidence map›Paper›PMID 25050442›Full record

ArticleProteins2014

The crystal structure of BlmI as a model for nonribosomal peptide synthetase peptidyl carrier proteins.

Jeremy R Lohman, Ming Ma, Marianne E Cuff, Lance Bigelow, Jessica Bearden, Gyorgy Babnigg, Andrzej Joachimiak, George N Phillips, Ben Shen

Open access · greenAbstract read
In one paragraph

Article in Proteins, 2014. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 18 papers.

0numbers the graph read from it
0cells of the map it votes in
18citing papers in PubMed
5.8field-weighted citation impact, top 4% 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

18 citing papers in PubMed, 37 citations in OpenAlex.

  1. Review
  2. Article
  3. Article
  4. Biosynthesis of depsipeptides, or Depsi: The peptides with varied generations.Protein science : a publication of the Protein Society · 2020
    Review
  5. Review
  6. Article
  7. Article
  8. Review
  9. Article
  10. Article
  11. Article
  12. Structural Biology of Nonribosomal Peptide Synthetases.Methods in molecular biology (Clifton, N.J.) · 2016
    Article
  13. Article
  14. Article
  15. Article
  16. Review
  17. Article
  18. Structural and bioinformatic characterization of an Acinetobacter baumannii type II carrier protein.Acta crystallographica. Section D, Biological crystallography · 2014
    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

9 authors at 4 institutions in 1 country.

Jeremy R Lohman
Ming Ma
Marianne E Cuff
Lance Bigelow
Jessica Bearden
Gyorgy Babnigg
Andrzej Joachimiak
George N Phillips
Ben Shen
Joint Center for Structural Genomics · USScripps Research Institute · USArgonne National Laboratory · USRice University · US

Funding

Midwest Center for Structural GenomicsU54GM094585 · NIGMS · UNIVERSITY OF CHICAGO · PI MINOR, WLADEK · 2010 to 2014
$33.7M
Enzyme Discovery for Natural Product BiosynthesisU01GM098248 · NIGMS · UNIVERSITY OF WISCONSIN-MADISON · PI PHILLIPS, GEORGE NEAL · 2011 to 2015
$2.8M
BIOSYNTHESIS OF PEPTIDE/POLYKETIDE DERIVED ANTIBIOTICSR29AI040475 · NIAID · UNIVERSITY OF WISCONSIN MADISON · PI SHEN, BEN · 1997 to 2001
$181k
NIAID NIH HHS AI40475NIGMS NIH HHS GM094585NIGMS NIH HHS GM094596NIGMS NIH HHS U01 GM098248NIGMS NIH HHS U54 GM094585
6 · The paper itself

Abstract

Carrier proteins (CPs) play a critical role in the biosynthesis of various natural products, especially in nonribosomal peptide synthetase (NRPS) and polyketide synthase (PKS) enzymology, where the CPs are referred to as peptidyl-carrier proteins (PCPs) or acyl-carrier proteins (ACPs), respectively. CPs can either be a domain in large multifunctional polypeptides or standalone proteins, termed Type I and Type II, respectively. There have been many biochemical studies of the Type I PKS and NRPS CPs, and of Type II ACPs. However, recently a number of Type II PCPs have been found and biochemically characterized. In order to understand the possible interaction surfaces for combinatorial biosynthetic efforts we crystallized the first characterized and representative Type II PCP member, BlmI, from the bleomycin biosynthetic pathway from Streptomyces verticillus ATCC 15003. The structure is similar to CPs in general but most closely resembles PCPs. Comparisons with previously determined PCP structures in complex with catalytic domains reveals a common interaction surface. This surface is highly variable in charge and shape, which likely confers specificity for interactions. Previous nuclear magnetic resonance (NMR) analysis of a prototypical Type I PCP excised from the multimodular context revealed three conformational states. Comparison of the states with the structure of BlmI and other PCPs reveals that only one of the NMR states is found in other studies, suggesting the other two states may not be relevant. The state represented by the BlmI crystal structure can therefore serve as a model for both Type I and Type II PCPs.

Indexed as

Models, MolecularAmino Acid SequenceBacterial ProteinsCarrier ProteinsComputational BiologyIntracellular Signaling Peptides and ProteinsMolecular Sequence DataPhylogenyProtein ConformationSequence AlignmentBacterial ProteinsCarrier ProteinsIntracellular Signaling Peptides and Proteinspeptidyl carrier protein, type II, Streptomyces verticillus

Identifiers

PMID25050442
PMCPMC4109001
OpenAlexW2099568721

What OpenQuestion holds

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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.