(Q28483769)

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Computational and statistical analyses of amino acid usage and physico-chemical properties of the twelve late embryogenesis abundant protein classes

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scholarly article

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Computational and statistical analyses of amino acid usage and physico-chemical properties of the twelve late embryogenesis abundant protein classes (English)

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computational biology

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based on heuristic

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based on heuristic

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David Macherel

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Emmanuel Jaspard

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Gilles Hunault

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2012

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7

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5

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e36968

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Creative Commons Attribution 4.0 International

16 May 2012

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April 2022 Public Data File from Crossref

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InterPro: the integrative protein signature database

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3353982

19 March 2017

LEA (late embryogenesis abundant) proteins and their encoding genes in Arabidopsis thaliana

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19 March 2017

Dendroscope: An interactive viewer for large phylogenetic trees

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19 March 2017

Clustal W and Clustal X version 2.0

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19 March 2017

WoLF PSORT: protein localization predictor

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19 March 2017

DisProt: the Database of Disordered Proteins

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19 March 2017

CDD: a conserved domain database for interactive domain family analysis

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19 March 2017

Pfam: clans, web tools and services

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https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3353982

19 March 2017

Entropic stabilization of proteins and its proteomic consequences

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19 March 2017

LEAping to conclusions: A computational reanalysis of late embryogenesis abundant proteins and their possible roles

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19 March 2017

Molecular Responses to Water Deficit

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19 March 2017

Intrinsically disordered protein

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19 March 2017

ESPript: analysis of multiple sequence alignments in PostScript

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https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3353982

19 March 2017

A simple method for displaying the hydropathic character of a protein

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https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3353982

19 March 2017

Multiple sequence alignment with hierarchical clustering

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https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3353982

19 March 2017

Infrastructure for the life sciences: design and implementation of the UniProt website

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https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3353982

19 March 2017

Identification in pea seed mitochondria of a late-embryogenesis abundant protein able to protect enzymes from drying

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3353982

19 March 2017

SignalP 4.0: discriminating signal peptides from transmembrane regions

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https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3353982

7 April 2017

Locating proteins in the cell using TargetP, SignalP and related tools

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https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3353982

7 April 2017

Computational method to predict mitochondrially imported proteins and their targeting sequences

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https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3353982

7 April 2017

Prediction of protein antigenic determinants from amino acid sequences

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https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3353982

7 April 2017

Sequence complexity of disordered protein

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3353982

7 April 2017

Why are "natively unfolded" proteins unstructured under physiologic conditions?

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3353982

7 April 2017

Twilight zone of protein sequence alignments

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7 April 2017

Analysis of membrane and surface protein sequences with the hydrophobic moment plot

1 reference

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7 April 2017

Abscisic acid induction of cloned cotton late embryogenesis-abundant (Lea) mRNAs

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3353982

29 September 2017

Phosphorylation of Thellungiella salsuginea dehydrins TsDHN-1 and TsDHN-2 facilitates cation-induced conformational changes and actin assembly.

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3353982

29 September 2017

A functionally required unfoldome from the plant kingdom: intrinsically disordered N-terminal domains of GRAS proteins are involved in molecular recognition during plant development.

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3353982

29 September 2017

Protein disorder--a breakthrough invention of evolution?

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https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3353982

29 September 2017

Zinc induces disorder-to-order transitions in free and membrane-associated Thellungiella salsuginea dehydrins TsDHN-1 and TsDHN-2: a solution CD and solid-state ATR-FTIR study

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3353982

29 September 2017

Interactions of intrinsically disordered Thellungiella salsuginea dehydrins TsDHN-1 and TsDHN-2 with membranes - synergistic effects of lipid composition and temperature on secondary structure

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3353982

29 September 2017

A mitochondrial late embryogenesis abundant protein stabilizes model membranes in the dry state.

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3353982

29 September 2017

PSORTb 3.0: improved protein subcellular localization prediction with refined localization subcategories and predictive capabilities for all prokaryotes.

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3353982

29 September 2017

Intrinsically disordered chaperones in plants and animals.

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https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3353982

29 September 2017

LEAPdb: a database for the late embryogenesis abundant proteins

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https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3353982

29 September 2017

Understanding protein non-folding.

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3353982

29 September 2017

Expression profiling and cross-species RNA interference (RNAi) of desiccation-induced transcripts in the anhydrobiotic nematode Aphelenchus avenae.

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3353982

29 September 2017

Characterization of two soybean (Glycine max L.) LEA IV proteins by circular dichroism and Fourier transform infrared spectrometry

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3353982

29 September 2017

Toward a quantitative theory of intrinsically disordered proteins and their function

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3353982

29 September 2017

Uncover the conserved property underlying sequence-distant and structure-similar proteins.

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3353982

29 September 2017

The K-segment of maize DHN1 mediates binding to anionic phospholipid vesicles and concomitant structural changes

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3353982

29 September 2017

Desiccation induced structural alterations in a 66-amino acid fragment of an anhydrobiotic nematode late embryogenesis abundant (LEA) protein.

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3353982

29 September 2017

Characterization of a group 1 late embryogenesis abundant protein in encysted embryos of the brine shrimp Artemia franciscana

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3353982

29 September 2017

Understanding the physical properties that control protein crystallization by analysis of large-scale experimental data.

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https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3353982

29 September 2017

TOP-IDP-scale: a new amino acid scale measuring propensity for intrinsic disorder

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https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3353982

29 September 2017

The unfoldomics decade: an update on intrinsically disordered proteins.

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https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3353982

29 September 2017

Chaperone activity of ERD10 and ERD14, two disordered stress-related plant proteins

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https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3353982

29 September 2017

Inferring function using patterns of native disorder in proteins

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https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3353982

29 September 2017

Functional anthology of intrinsic disorder. 1. Biological processes and functions of proteins with long disordered regions.

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https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3353982

29 September 2017

On the relationship between sequence and structure similarities in proteomics.

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https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3353982

29 September 2017

Comparative analysis of the heat stable proteome of radicles of Medicago truncatula seeds during germination identifies late embryogenesis abundant proteins associated with desiccation tolerance.

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https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3353982

29 September 2017

Solution structure of a late embryogenesis abundant protein (LEA14) from Arabidopsis thaliana, a cellular stress-related protein

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https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3353982

29 September 2017

A network representation of protein structures: implications for protein stability.

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https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3353982

29 September 2017

FoldIndex: a simple tool to predict whether a given protein sequence is intrinsically unfolded

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https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3353982

29 September 2017

The binding of maize DHN1 to lipid vesicles. Gain of structure and lipid specificity

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3353982

29 September 2017

Temperature-induced extended helix/random coil transitions in a group 1 late embryogenesis-abundant protein from soybean.

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3353982

29 September 2017

Anhydrobiosis: plant desiccation gene found in a nematode

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3353982

29 September 2017

Developmental biochemistry of cottonseed embryogenesis and germination: changing messenger ribonucleic acid populations as shown by in vitro and in vivo protein synthesis

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3353982

29 September 2017

Surface and inside volumes in globular proteins

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3353982

29 September 2017

PDBselect 1992-2009 and PDBfilter-select

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3353982

2 June 2018

An unusual intrinsically disordered protein from the model legume Lotus japonicus stabilizes proteins in vitro

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3353982

2 June 2018

An amino acid "transmembrane tendency" scale that approaches the theoretical limit to accuracy for prediction of transmembrane helices: relationship to biological hydrophobicity

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3353982

2 June 2018

Cotton Lea5 and Lea14 encode atypical late embryogenesis-abundant proteins

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3353982

2 June 2018

Developmental biochemistry of cottonseed embryogenesis and germination: changing messenger ribonucleic acid populations as shown by reciprocal heterologous complementary deoxyribonucleic acid-messenger ribonucleic acid hybridization

1 reference

https://api.crossref.org/works/10.1371%2FJOURNAL.PONE.0036968

21 January 2018

Common amino acid sequence domains among the LEA proteins of higher plants.

1 reference

https://api.crossref.org/works/10.1371%2FJOURNAL.PONE.0036968

21 January 2018

The continuing conundrum of the LEA proteins.

1 reference

https://api.crossref.org/works/10.1371%2FJOURNAL.PONE.0036968

21 January 2018

The characterization of amino acid sequences in proteins by statistical methods

1 reference

https://api.crossref.org/works/10.1371%2FJOURNAL.PONE.0036968

21 January 2018

Tunable membrane binding of the intrinsically disordered dehydrin Lti30, a cold-induced plant stress protein.

1 reference

https://api.crossref.org/works/10.1371%2FJOURNAL.PONE.0036968

21 January 2018

The intrinsically disordered late embryogenesis abundant protein LEA18 from Arabidopsis thaliana modulates membrane stability through binding and folding

1 reference

https://api.crossref.org/works/10.1371%2FJOURNAL.PONE.0036968

21 January 2018

Structural investigation of disordered stress proteins. Comparison of full-length dehydrins with isolated peptides of their conserved segments

1 reference

https://api.crossref.org/works/10.1371%2FJOURNAL.PONE.0036968

21 January 2018

Conformation of a group 2 late embryogenesis abundant protein from soybean. Evidence of poly (L-proline)-type II structure

1 reference

https://api.crossref.org/works/10.1371%2FJOURNAL.PONE.0036968

21 January 2018

Influence of drying on the secondary structure of intrinsically disordered and globular proteins

1 reference

https://api.crossref.org/works/10.1371%2FJOURNAL.PONE.0036968

21 January 2018

Transition from natively unfolded to folded state induced by desiccation in an anhydrobiotic nematode protein.

1 reference

https://api.crossref.org/works/10.1371%2FJOURNAL.PONE.0036968

21 January 2018

Gene cloning and characterization of a soybean (Glycine max L.) LEA protein, GmPM16.

1 reference

https://api.crossref.org/works/10.1371%2FJOURNAL.PONE.0036968

21 January 2018

Fe binding properties of two soybean (Glycine max L.) LEA4 proteins associated with antioxidant activity

1 reference

https://api.crossref.org/works/10.1371%2FJOURNAL.PONE.0036968

21 January 2018

MtPM25 is an atypical hydrophobic late embryogenesis-abundant protein that dissociates cold and desiccation-aggregated proteins

1 reference

https://api.crossref.org/works/10.1371%2FJOURNAL.PONE.0036968

21 January 2018

Structural transitions in the intrinsically disordered plant dehydration stress protein LEA7 upon drying are modulated by the presence of membranes

1 reference

https://pubmed.ncbi.nlm.nih.gov/22615859

12 December 2020

based on heuristic

inferred from PubMed ID database lookup

Inventory, evolution and expression profiling diversity of the LEA (late embryogenesis abundant) protein gene family in Arabidopsis thaliana

1 reference

https://pubmed.ncbi.nlm.nih.gov/22615859

12 December 2020

based on heuristic

inferred from PubMed ID database lookup

Structure and function of a mitochondrial late embryogenesis abundant protein are revealed by desiccation

1 reference

https://pubmed.ncbi.nlm.nih.gov/22615859

12 December 2020

based on heuristic

inferred from PubMed ID database lookup

Interaction of two intrinsically disordered plant stress proteins (COR15A and COR15B) with lipid membranes in the dry state

1 reference

https://pubmed.ncbi.nlm.nih.gov/22615859

12 December 2020

based on heuristic

inferred from PubMed ID database lookup

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10.1371/JOURNAL.PONE.0036968

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2012PLoSO...736968J

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