(Q36348400)

13 August 2017

Coupled prediction of protein secondary and tertiary structure (English)

1 reference

protein structure prediction

13 August 2017

0 references

0 references

1

1 reference

13 August 2017

David Baker

2

1 reference

PMCID

218720

13 August 2017

language of work or name

English

0 references

publication date

3 October 2003

1 reference

Proceedings of the National Academy of Sciences of the United States of America

13 August 2017

1 reference

13 August 2017

100

1 reference

13 August 2017

21

1 reference

13 August 2017

12105-12110

1 reference

The HI0073/HI0074 protein pair from Haemophilus influenzae is a member of a new nucleotidyltransferase family: structure, sequence analyses, and solution studies

13 August 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=218720

Crystal structure of the homologous-pairing domain from the human Rad52 recombinase in the undecameric form

30 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=218720

Toward predicting protein topology: an approach to identifying beta hairpins.

30 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=218720

Structure of arterivirus nsp4. The smallest chymotrypsin-like proteinase with an alpha/beta C-terminal extension and alternate conformations of the oxyanion hole

30 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=218720

The dual role of a loop with low loop contact distance in folding and domain swapping

30 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=218720

Structural biology of prions

30 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=218720

LiveBench-2: large-scale automated evaluation of protein structure prediction servers.

30 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=218720

Evidence that the 127-164 region of prion proteins has two equi-energetic conformations with beta or alpha features

30 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=218720

Environmental features are important in determining protein secondary structure

30 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=218720

HMMSTR: a hidden Markov model for local sequence-structure correlations in proteins.

30 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=218720

Protein misfolding and prion diseases

30 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=218720

Protein secondary structure prediction based on position-specific scoring matrices

30 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=218720

Conformations of peptide fragments from the FK506 binding protein: comparison with the native and urea-unfolded states

30 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=218720

Improved method for prediction of protein backbone U-turn positions and major secondary structural elements between U-turns

30 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=218720

Assembly of protein tertiary structures from fragments with similar local sequences using simulated annealing and Bayesian scoring functions

30 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=218720

High helicity of peptide fragments corresponding to beta-strand regions of beta-lactoglobulin observed by 2D-NMR spectroscopy.

30 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=218720

Folding propensities of peptide fragments of myoglobin

30 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=218720

Conformational analysis of peptides corresponding to all the secondary structure elements of protein L B1 domain: secondary structure propensities are not conserved in proteins with the same fold

30 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=218720

Identification and application of the concepts important for accurate and reliable protein secondary structure prediction

30 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=218720

NMR structure of the mouse prion protein domain PrP(121-231)

30 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=218720

Improved prediction of protein secondary structure by use of sequence profiles and neural networks

30 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=218720

Prediction of protein secondary structure at better than 70% accuracy

30 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=218720

Redefining the goals of protein secondary structure prediction

30 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=218720

Proposed three-dimensional structure for the cellular prion protein

30 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=218720

Structural clues to prion replication

30 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=218720

Conversion of alpha-helices into beta-sheets features in the formation of the scrapie prion proteins

30 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=218720

A short linear peptide that folds into a native stable beta-hairpin in aqueous solution

30 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=218720

Predicting the secondary structure of globular proteins using neural network models

30 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=218720

Improvements in protein secondary structure prediction by an enhanced neural network

30 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=218720

Basic local alignment search tool

30 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=218720

Selection of representative protein data sets

30 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=218720

Analysis of the accuracy and implications of simple methods for predicting the secondary structure of globular proteins

30 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=218720

Preparation of insoluble transmembrane peptides: glycophorin-A, prion (110-137), and FGFR (368-397).

30 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=218720

New methods for accurate prediction of protein secondary structure

29 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=218720

Conformational switching in designed peptides: the helix/sheet transition

29 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=218720

A method for the prediction of surface "U"-turns and transglobular connections in small proteins

29 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=218720

The prion folding problem.

29 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=218720

Neural networks for secondary structure and structural class predictions.

29 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=218720

Molecular modeling of RNA polymerase II mutations onto DNA polymerase I.

29 June 2018

1 reference

https://api.crossref.org/works/10.1073%2FPNAS.1831973100

Decision tree-based formation of consensus protein secondary structure prediction.

21 January 2018

1 reference

https://api.crossref.org/works/10.1073%2FPNAS.1831973100

Hints of nonhierarchical folding of acidic fibroblast growth factor.

21 January 2018

1 reference

https://api.crossref.org/works/10.1073%2FPNAS.1831973100

Prion protein peptides induce alpha-helix to beta-sheet conformational transitions

21 January 2018

1 reference

https://api.crossref.org/works/10.1073%2FPNAS.1831973100

Folding and intrinsic stability of deletion variants of PrP(121-231), the folded C-terminal domain of the prion protein

21 January 2018

1 reference

https://api.crossref.org/works/10.1073%2FPNAS.1831973100

Rosetta in CASP4: progress in ab initio protein structure prediction

21 January 2018

1 reference

https://api.crossref.org/works/10.1073%2FPNAS.1831973100

Prediction of protein secondary structure at 80% accuracy.

21 January 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=218720

LGANN: a parallel system combining a local genetic algorithm and neural networks for the prediction of secondary structure of proteins.

22 September 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=218720

LGANN: a parallel system combining a local genetic algorithm and neural networks for the prediction of secondary structure of proteins

22 September 2018

1 reference

https://api.crossref.org/works/10.1073%2FPNAS.1831973100

Three-dimensional NMR structure of a self-folding domain of the prion protein PrP(121–231)

21 January 2018

1 reference

https://api.crossref.org/works/10.1073%2FPNAS.1831973100

A tale of two secondary structure elements: when a β-hairpin becomes an α-helix 1 1Edited by A. R. Fersht

21 January 2018

1 reference

https://api.crossref.org/works/10.1073%2FPNAS.1831973100

Comparison of predicted and experimentally determined secondary structure of adenyl kinase

21 January 2018

1 reference

https://api.crossref.org/works/10.1073%2FPNAS.1831973100

Context-dependent secondary structure formation of a designed protein sequence

21 January 2018

1 reference

https://api.crossref.org/works/10.1073%2FPNAS.1831973100

Analysis of the Code Relating Sequence to Secondary Structure in Proteins

21 January 2018

1 reference

https://api.crossref.org/works/10.1073%2FPNAS.1831973100

Conformational analysis of a set of peptides corresponding to the entire primary sequence of the N-terminal domain of the ribosomal protein L9: evidence for stable native-like secondary structure in the unfolded state 1 1Edited by P. E. Wright

21 January 2018

1 reference

https://api.crossref.org/works/10.1073%2FPNAS.1831973100

High helical propensity of the peptide fragments derived from beta-lactoglobulin, a predominantly beta-sheet protein

21 January 2018

1 reference

https://api.crossref.org/works/10.1073%2FPNAS.1831973100

21 January 2018

Biodiversity questions

1 reference

https://api.crossref.org/works/10.1073%2FPNAS.1831973100

Improved recognition of native-like protein structures using a combination of sequence-dependent and sequence-independent features of proteins

21 January 2018

2 references

https://api.crossref.org/works/10.1073%2FPNAS.1831973100

21 January 2018

https://pubmed.ncbi.nlm.nih.gov/14528006

inferred from PubMed ID database lookup

12 December 2020

based on heuristic

Mechanism of scrapie replication

1 reference

PubMed

https://pubmed.ncbi.nlm.nih.gov/14528006

inferred from PubMed ID database lookup

12 December 2020

based on heuristic

Identifiers

DOI

10.1073/PNAS.1831973100

1 reference

13 August 2017

0 references

1 reference

13 August 2017

1 reference

PMCID

218720