Structure-based conformational preferences of amino acids (Q36543875)

14 August 2017

Structure-based conformational preferences of amino acids (English)

1 reference

14 August 2017

Koehl P

1

1 reference

PMCID

22969

14 August 2017

Levitt M

series ordinal

2

1 reference

PMCID

22969

14 August 2017

language of work or name

English

0 references

publication date

1 October 1999

1 reference

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

14 August 2017

1 reference

14 August 2017

96

1 reference

14 August 2017

22

1 reference

14 August 2017

12524-12529

1 reference

The structure of proteins; two hydrogen-bonded helical configurations of the polypeptide chain

14 August 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=22969

A brighter future for protein 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=22969

Role of hydrophobicity and solvent-mediated charge-charge interactions in stabilizing alpha-helices

30 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=22969

Deciphering rules of helix stability in peptides

30 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=22969

A helix propensity scale based on experimental studies of peptides and 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=22969

The future of protein secondary structure prediction 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=22969

A direct comparison of helix propensity in proteins and peptides

30 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=22969

Seventy-five percent accuracy in 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=22969

Knowledge-based protein secondary structure assignment

30 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=22969

Structural basis of amino acid alpha helix propensity

30 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=22969

Engineering of stable and fast-folding sequences of model 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=22969

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=22969

A new approach to the design of stable 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=22969

Determination of alpha-helix propensity within the context of a folded protein. Sites 44 and 131 in bacteriophage T4 lysozyme

30 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=22969

Application of a self-consistent mean field theory to predict protein side-chains conformation and estimate their conformational entropy

30 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=22969

Two crystal structures of the B1 immunoglobulin-binding domain of streptococcal protein G and comparison with NMR

30 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=22969

Prediction of protein secondary structure by combining nearest-neighbor algorithms and multiple sequence alignments

30 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=22969

Solution structure of the SH3 domain of phospholipase C-gamma

30 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=22969

Free energy determinants of secondary structure formation: II. Antiparallel beta-sheets

30 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=22969

Free energy determinants of secondary structure formation: I. alpha-Helices

30 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=22969

Structure of bovine pancreatic trypsin inhibitor. Results of joint neutron and X-ray refinement of crystal form II

30 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=22969

Conformational parameters for amino acids in helical, beta-sheet, and random coil regions calculated from 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=22969

Solvation energy in protein folding and binding

30 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=22969

Crystal and molecular structure of the serine proteinase inhibitor CI-2 from barley seeds

30 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=22969

Prediction of protein secondary structure and active sites using the alignment of homologous sequences

30 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=22969

Structure of the C-terminal domain of the ribosomal protein L7/L12 from Escherichia coli at 1.7 A

30 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=22969

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=22969

Protein secondary structure prediction with a 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=22969

Crystal structure of plastocyanin from a green alga, Enteromorpha prolifera

30 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=22969

A new approach to protein fold recognition

30 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=22969

Proline cis-trans isomers in calbindin D9k observed by X-ray crystallography

30 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=22969

The intrinsic helix-forming tendency of L-alanine

30 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=22969

Refined 1.8 A crystal structure of the lambda repressor-operator complex

30 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=22969

Structure of chicken muscle triose phosphate isomerase determined crystallographically at 2.5Å resolution: using amino acid sequence data

30 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=22969

The Protein Data Bank: a computer-based archival file for macromolecular structures

30 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=22969

Structure of myoglobin refined at 2-0 A resolution. II. Structure of deoxymyoglobin from sperm whale

30 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=22969

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=22969

Prediction of the Secondary Structure of Proteins from their Amino Acid Sequence

30 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=22969

Improvements in the prediction of protein backbone topography by reduction of statistical errors

30 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=22969

A thermodynamic scale for the beta-sheet forming tendencies of the amino acids.

30 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=22969

Elucidating the folding problem of helical peptides using empirical parameters. II. Helix macrodipole effects and rational modification of the helical content of natural peptides.

28 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=22969

Theory of protein secondary structure and algorithm of its prediction.

28 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=22969

Logical analysis of the mechanism of protein folding. I. Predictions of helices, loops and beta-structures from primary structure.

28 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=22969

Structural principles of the globular organization of protein chains. A stereochemical theory of globular protein secondary structure.

28 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=22969

PRONET: a microcomputer program for predicting the secondary structure of proteins with a neural network.

28 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=22969

Systematic mutation of bacteriophage T4 lysozyme.

28 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=22969

Statistical Mechanical Treatment of Protein Conformation. I. Conformational Properties of Amino Acids in Proteins

28 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=22969

Conformational preferences of amino acids in globular proteins

28 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=22969

Protein secondary structure and homology by neural networks The α-helices in rhodopsin

28 June 2018

1 reference

https://api.crossref.org/works/10.1073%2FPNAS.96.22.12524

Protein secondary structure prediction using nearest-neighbor methods.

21 January 2018

1 reference

https://api.crossref.org/works/10.1073%2FPNAS.96.22.12524

Equation of State Calculations by Fast Computing Machines

21 January 2018

1 reference

https://api.crossref.org/works/10.1073%2FPNAS.96.22.12524

Thermodynamic beta-sheet propensities measured using a zinc-finger host peptide.

21 January 2018

1 reference

https://api.crossref.org/works/10.1073%2FPNAS.96.22.12524

Using Evolutionary Trees in Protein Secondary Structure Prediction and Other Comparative Sequence Analyses

21 January 2018

1 reference

https://api.crossref.org/works/10.1073%2FPNAS.96.22.12524

Side-Chain Determinants of .beta.-Sheet Stability

21 January 2018

1 reference

https://api.crossref.org/works/10.1073%2FPNAS.96.22.12524

Context is a major determinant of β-sheet propensity

21 January 2018

1 reference

https://api.crossref.org/works/10.1073%2FPNAS.96.22.12524

Measurement of the β-sheet-forming propensities of amino acids

21 January 2018

1 reference

https://api.crossref.org/works/10.1073%2FPNAS.96.22.12524

Further developments of protein secondary structure prediction using information theory. New parameters and consideration of residue pairs

21 January 2018

1 reference

https://api.crossref.org/works/10.1073%2FPNAS.96.22.12524

Structure-based thermodynamic scale of alpha-helix propensities in amino acids

21 January 2018

1 reference

https://api.crossref.org/works/10.1073%2FPNAS.96.22.12524

Polar and nonpolar atomic environments in the protein core: implications for folding and binding

21 January 2018

1 reference

https://api.crossref.org/works/10.1073%2FPNAS.96.22.12524

Helix-coil transition of the isolated amino terminus of ribonuclease

21 January 2018

1 reference

https://api.crossref.org/works/10.1073%2FPNAS.96.22.12524

Helix propensities are identical in proteins and peptides

21 January 2018

1 reference

https://api.crossref.org/works/10.1073%2FPNAS.96.22.12524

21 January 2018

Identifiers

DOI

10.1073/PNAS.96.22.12524

1 reference

14 August 2017

0 references

1 reference

14 August 2017

1 reference

PMCID

22969