Exploration of uncharted regions of the protein universe (Q21092729)

15 August 2022

1

Lukasz Jaroszewski

Lukasz

Jaroszewski

1 reference

19787035

15 August 2022

Constantina Bakolitsa

series ordinal

4

object named as

Constantina Bakolitsa

author given names

Constantina

author last names

Bakolitsa

1 reference

15 August 2022

5

John Wooley

John

Wooley

1 reference

15 August 2022

7

Ian A Wilson

Ian A

Wilson

1 reference

15 August 2022

6

Ashley M Deacon

Ashley M

Deacon

1 reference

15 August 2022

3

S Sri

Krishna

S Sri Krishna

1 reference

15 August 2022

Zhanwen Li

2

Zhanwen

Li

1 reference

19787035

Creative Commons Attribution 4.0 International

15 August 2022

language of work or name

English

0 references

publication date

September 2009

0 references

published in

PLOS Biology

0 references

volume

7

0 references

issue

9

0 references

page(s)

e1000205

0 references

copyright license

start time

29 September 2009

1 reference

April 2022 Public Data File from Crossref

copyright status

copyrighted

0 references

cites work

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19 March 2017

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19 March 2017

1 reference

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Progress towards mapping the universe of protein folds

19 March 2017

1 reference

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The COG database: an updated version includes eukaryotes

19 March 2017

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Gapped BLAST and PSI-BLAST: a new generation of protein database search programs

19 March 2017

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Profile analysis: detection of distantly related proteins

19 March 2017

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The 2006 Automated Function Prediction Meeting

19 March 2017

1 reference

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A Genomic Perspective on Protein Families

19 March 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2744874

Mapping the protein universe

19 March 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2744874

Conserved 'hypothetical' proteins: new hints and new puzzles

19 March 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2744874

Protein homology detection by HMM-HMM comparison

19 March 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2744874

One thousand families for the molecular biologist

19 March 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2744874

Cd-hit: a fast program for clustering and comparing large sets of protein or nucleotide sequences

19 March 2017

1 reference

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Data growth and its impact on the SCOP database: new developments

7 April 2017

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Metagenomics: application of genomics to uncultured microorganisms

7 April 2017

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Flexible structure alignment by chaining aligned fragment pairs allowing twists

7 April 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2744874

Hidden Markov models in computational biology. Applications to protein modeling

7 April 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2744874

7 April 2017

1 reference

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Uncharacterized/hypothetical proteins in biomedical 'omics' experiments: is novelty being swept under the carpet?

7 April 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2744874

Exploring the structure and function paradigm.

12 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2744874

Discrimination between distant homologs and structural analogs: lessons from manually constructed, reliable data sets

12 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2744874

The success of the genome-wide association approach: a brief story of a long struggle

12 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2744874

12 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2744874

Computational protein function prediction: are we making progress?

12 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2744874

Successful design and conduct of genome-wide association studies

12 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2744874

Metaproteomics: a new approach for studying functional microbial ecology

12 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2744874

New developments in the InterPro database

12 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2744874

Essential genes on metabolic maps.

12 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2744874

Illumina universal bead arrays

12 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2744874

Highly parallel genomic assays

12 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2744874

Protein structure comparison: implications for the nature of 'fold space', and structure and function prediction.

12 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2744874

Metaproteomics: studying functional gene expression in microbial ecosystems

12 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2744874

Connecting the protein structure universe by using sparse recurring fragments.

12 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2744874

'Conserved hypothetical' proteins: prioritization of targets for experimental study

12 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2744874

On the evolution of protein folds: are similar motifs in different protein folds the result of convergence, insertion, or relics of an ancient peptide world?

12 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2744874

Fold change in evolution of protein structures

12 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2744874

Estimating the number of protein folds and families from complete genome data

12 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2744874

Estimating the total number of protein folds

12 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2744874

Genome analysis with gene expression microarrays

12 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2744874

Protein-tyrosine phosphatases.

27 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2744874

Why do globular proteins fit the limited set of folding patterns?

27 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2744874

Comparison of sequence profiles. Strategies for structural predictions using sequence information

27 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2744874

Estimating the number of protein folds.

30 May 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2744874

Primary structure and subunit stoichiometry of F1-ATPase from bovine mitochondria.

30 May 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2744874

Cell size and nucleoid organization of engineered Escherichia coli cells with a reduced genome.

19 June 2018

1 reference

https://api.crossref.org/works/10.1371/JOURNAL.PBIO.1000205

21 January 2018

1 reference

https://api.crossref.org/works/10.1371/JOURNAL.PBIO.1000205

Quantifying the similarities within fold space

21 January 2018

1 reference

https://api.crossref.org/works/10.1371/JOURNAL.PBIO.1000205

Structural drift: a possible path to protein fold change

21 January 2018

1 reference

https://api.crossref.org/works/10.1371/JOURNAL.PBIO.1000205

Structurally analogous proteins do exist!

21 January 2018

1 reference

https://api.crossref.org/works/10.1371/JOURNAL.PBIO.1000205

Shotgun metaproteomics of the human distal gut microbiota

21 January 2018

1 reference

https://api.crossref.org/works/10.1371/JOURNAL.PBIO.1000205

Protein structure space is much more than the sum of its folds

21 January 2018

1 reference

https://pubmed.ncbi.nlm.nih.gov/19787035

inferred from PubMed ID database lookup

12 December 2020

based on heuristic

Estimating the total number of protein folds

1 reference

https://api.crossref.org/works/10.1371/JOURNAL.PBIO.1000205

inferred from DOI database lookup

7 January 2021

based on heuristic

Identifiers

DOI

10.1371/JOURNAL.PBIO.1000205

1 reference

1 reference

1 reference

19787035

1 reference