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QMEANclust: estimation of protein model quality by combining a composite scoring function with structural density information.
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Europe PubMed Central
PMC publication ID
2709111
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https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:19457232%20AND%20SRC:MED&resulttype=core&format=json
retrieved
28 January 2020
title
QMEANclust: estimation of protein model quality by combining a composite scoring function with structural density information
(English)
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Europe PubMed Central
PMC publication ID
2709111
reference URL
https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:19457232%20AND%20SRC:MED&resulttype=core&format=json
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28 January 2020
author
Torsten Schwede
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Europe PubMed Central
PMC publication ID
2709111
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https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:19457232%20AND%20SRC:MED&resulttype=core&format=json
retrieved
28 January 2020
Silvio C.E. Tosatto
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Europe PubMed Central
PMC publication ID
2709111
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https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:19457232%20AND%20SRC:MED&resulttype=core&format=json
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28 January 2020
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Pascal Benkert
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2709111
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https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:19457232%20AND%20SRC:MED&resulttype=core&format=json
retrieved
28 January 2020
publication date
20 May 2009
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28 January 2020
published in
BMC Structural Biology
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Europe PubMed Central
PMC publication ID
2709111
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https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:19457232%20AND%20SRC:MED&resulttype=core&format=json
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28 January 2020
volume
9
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Europe PubMed Central
PMC publication ID
2709111
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https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:19457232%20AND%20SRC:MED&resulttype=core&format=json
retrieved
28 January 2020
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35
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Europe PubMed Central
PMC publication ID
2709111
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https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:19457232%20AND%20SRC:MED&resulttype=core&format=json
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28 January 2020
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https://scigraph.springernature.com/pub.10.1186/1472-6807-9-35
0 references
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QMEAN server for protein model quality estimation
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PubMed Central
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20 June 2018
How well can the accuracy of comparative protein structure models be predicted?
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20 June 2018
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20 June 2018
Protein model quality assessment prediction by combining fragment comparisons and a consensus C(alpha) contact potential
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20 June 2018
Ranking predicted protein structures with support vector regression.
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20 June 2018
High-resolution structure prediction and the crystallographic phase problem
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https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2709111
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20 June 2018
QMEAN: A comprehensive scoring function for model quality assessment.
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https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2709111
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20 June 2018
Critical assessment of methods of protein structure prediction-Round VII
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https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2709111
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20 June 2018
Automated server predictions in CASP7
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https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2709111
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20 June 2018
Prediction of global and local model quality in CASP7 using Pcons and ProQ.
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https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2709111
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20 June 2018
High accuracy template based modeling by global optimization
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https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2709111
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20 June 2018
Benchmarking consensus model quality assessment for protein fold recognition.
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20 June 2018
Analysis of TASSER-based CASP7 protein structure prediction results.
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20 June 2018
Assessment of predictions in the model quality assessment category.
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https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2709111
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20 June 2018
Local quality assessment in homology models using statistical potentials and support vector machines
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https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2709111
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20 June 2018
M4T: a comparative protein structure modeling server.
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https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2709111
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20 June 2018
Ab initio modeling of small proteins by iterative TASSER simulations
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PubMed Central
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https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2709111
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20 June 2018
Statistical potential for assessment and prediction of protein structures
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PubMed Central
reference URL
https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2709111
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20 June 2018
How inaccuracies in protein structure models affect estimates of protein-ligand interactions: computational analysis of HIV-I protease inhibitor binding.
1 reference
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PubMed Central
reference URL
https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2709111
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20 June 2018
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PubMed Central
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https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2709111
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20 June 2018
A composite score for predicting errors in protein structure models
1 reference
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PubMed Central
reference URL
https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2709111
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20 June 2018
Servers for protein structure prediction.
1 reference
stated in
PubMed Central
reference URL
https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2709111
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20 June 2018
The victor/FRST function for model quality estimation.
1 reference
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PubMed Central
reference URL
https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2709111
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20 June 2018
ROCR: visualizing classifier performance in R
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PubMed Central
reference URL
https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2709111
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20 June 2018
Scoring function for automated assessment of protein structure template quality
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PubMed Central
reference URL
https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2709111
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20 June 2018
Utility of homology models in the drug discovery process.
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PubMed Central
reference URL
https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2709111
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20 June 2018
Improved protein structure selection using decoy-dependent discriminatory functions
1 reference
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PubMed Central
reference URL
https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2709111
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20 June 2018
Comparative protein structure modeling by iterative alignment, model building and model assessment
1 reference
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PubMed Central
reference URL
https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2709111
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20 June 2018
LGA: A method for finding 3D similarities in protein structures
1 reference
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PubMed Central
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https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2709111
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20 June 2018
3D-Jury: a simple approach to improve protein structure predictions
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PubMed Central
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https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2709111
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20 June 2018
Can correct protein models be identified?
1 reference
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PubMed Central
reference URL
https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2709111
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20 June 2018
Distance-scaled, finite ideal-gas reference state improves structure-derived potentials of mean force for structure selection and stability prediction
1 reference
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PubMed Central
reference URL
https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2709111
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20 June 2018
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1 reference
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PubMed Central
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https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2709111
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20 June 2018
Statistical potentials for fold assessment.
1 reference
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PubMed Central
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https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2709111
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20 June 2018
Pcons: a neural-network-based consensus predictor that improves fold recognition.
1 reference
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https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2709111
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20 June 2018
Protein structure prediction and structural genomics
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20 June 2018
A study of quality measures for protein threading models
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20 June 2018
A distance-dependent atomic knowledge-based potential for improved protein structure selection.
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20 June 2018
MaxSub: an automated measure for the assessment of protein structure prediction quality.
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https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2709111
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20 June 2018
Enhanced genome annotation using structural profiles in the program 3D-PSSM
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https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2709111
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20 June 2018
Discrimination of the native from misfolded protein models with an energy function including implicit solvation
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20 June 2018
Clustering of low-energy conformations near the native structures of small proteins
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https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2709111
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20 June 2018
Assessing protein structures with a non-local atomic interaction energy.
1 reference
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https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2709111
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20 June 2018
An all-atom distance-dependent conditional probability discriminatory function for protein structure prediction
1 reference
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20 June 2018
Comparative protein modeling by satisfaction of spatial restraints
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https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2709111
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20 June 2018
Assembly of protein tertiary structures from fragments with similar local sequences using simulated annealing and Bayesian scoring functions
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https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2709111
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20 June 2018
Errors in protein structures
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PubMed Central
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https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2709111
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20 June 2018
Recognition of errors in three-dimensional structures of proteins
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PubMed Central
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https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2709111
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20 June 2018
Dictionary of protein secondary structure: pattern recognition of hydrogen-bonded and geometrical features
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https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2709111
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20 June 2018
The relation between the divergence of sequence and structure in proteins
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PubMed Central
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https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2709111
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20 June 2018
Calculation of conformational ensembles from potentials of mean force. An approach to the knowledge-based prediction of local structures in globular proteins.
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https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2709111
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20 June 2018
A new approach to protein fold recognition
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PubMed Central
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https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2709111
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20 June 2018
Assessment of protein models with three-dimensional profiles
1 reference
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PubMed Central
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20 June 2018
Towards an automatic method of predicting protein structure by homology: an evaluation of suboptimal sequence alignments
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https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2709111
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20 June 2018
Threading without optimizing weighting factors for scoring function.
1 reference
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PubMed Central
reference URL
https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2709111
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26 November 2018
Estimating quality of template-based protein models by alignment stability.
1 reference
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PubMed Central
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https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2709111
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26 November 2018
Identification of correct regions in protein models using structural, alignment, and consensus information
1 reference
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PubMed Central
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https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2709111
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26 November 2018
TASSER: an automated method for the prediction of protein tertiary structures in CASP6.
1 reference
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PubMed Central
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https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2709111
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26 November 2018
Predicting reliable regions in protein alignments from sequence profiles.
1 reference
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https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2709111
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26 November 2018
Identifying native-like protein structures using physics-based potentials
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PubMed Central
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https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2709111
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26 November 2018
Using multiple structure alignments, fast model building, and energetic analysis in fold recognition and homology modeling
1 reference
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reference URL
https://pubmed.ncbi.nlm.nih.gov/19457232
retrieved
12 December 2020
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inferred from PubMed ID database lookup
Identifiers
DOI
10.1186/1472-6807-9-35
1 reference
stated in
Europe PubMed Central
PMC publication ID
2709111
reference URL
https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:19457232%20AND%20SRC:MED&resulttype=core&format=json
retrieved
28 January 2020
Dimensions Publication ID
1003576798
0 references
PMC publication ID
2709111
1 reference
stated in
Europe PubMed Central
PMC publication ID
2709111
reference URL
https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:19457232%20AND%20SRC:MED&resulttype=core&format=json
retrieved
28 January 2020
PubMed publication ID
19457232
1 reference
stated in
Europe PubMed Central
PMC publication ID
2709111
reference URL
https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:19457232%20AND%20SRC:MED&resulttype=core&format=json
retrieved
28 January 2020
ResearchGate publication ID
24441467
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