(Q34064011)

30 July 2017

title

Evaluating conformational free energies: the colony energy and its application to the problem of loop prediction (English)

1 reference

30 July 2017

Zhexin Xiang

1

1 reference

30 July 2017

Cinque S Soto

series ordinal

2

1 reference

30 July 2017

Barry Honig

series ordinal

3

1 reference

30 July 2017

language of work or name

English

0 references

publication date

1 May 2002

1 reference

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

30 July 2017

number of pages

6

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based on heuristic

inferred from page(s)

published in

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30 July 2017

volume

99

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30 July 2017

issue

11

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30 July 2017

page(s)

7432-7437

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All-atom empirical potential for molecular modeling and dynamics studies of proteins

30 July 2017

cites work

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=124248

Extending the accuracy limits of prediction for side-chain conformations

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=124248

Ab initio modeling of small, medium, and large loops in proteins.

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=124248

CODA: a combined algorithm for predicting the structurally variable regions of protein models.

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=124248

Modeling of loops in protein structures

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=124248

Global optimization of clusters, crystals, and biomolecules.

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=124248

Clustering of low-energy conformations near the native structures of small proteins

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=124248

PDB-based protein loop prediction: parameters for selection and methods for optimization.

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=124248

Conformational analysis and clustering of short and medium size loops connecting regular secondary structures: a database for modeling and prediction

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=124248

Structural families in loops of homologous proteins: automatic classification, modelling and application to antibodies

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=124248

Modeling of protein loops by simulated annealing

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=124248

Evaluation of the conformational free energies of loops in proteins.

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=124248

Comparison of systematic search and database methods for constructing segments of protein structure

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=124248

Model for haptoglobin heavy chain based upon structural homology

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=124248

Dictionary of protein secondary structure: pattern recognition of hydrogen-bonded and geometrical features

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=124248

WHAT IF: a molecular modeling and drug design program

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=124248

Common features of the conformations of antigen-binding loops in immunoglobulins and application to modeling loop conformations

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=124248

Taxonomy and conformational analysis of loops in proteins.

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=124248

Hydrogen bonding in globular proteins

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=124248

A global taxonomy of loops in globular proteins.

5 July 2018

1 reference

https://api.crossref.org/works/10.1073%2FPNAS.102179699

An automated classification of the structure of protein loops.

21 January 2018

1 reference

https://api.crossref.org/works/10.1073%2FPNAS.102179699

New efficient statistical sequence-dependent structure prediction of short to medium-sized protein loops based on an exhaustive loop classification.

21 January 2018

1 reference

https://api.crossref.org/works/10.1073%2FPNAS.102179699

A potential smoothing algorithm accurately predicts transmembrane helix packing.

21 January 2018

1 reference

https://api.crossref.org/works/10.1073%2FPNAS.102179699

SWARM-MD: Searching Conformational Space by Cooperative Molecular Dynamics

21 January 2018

1 reference

https://api.crossref.org/works/10.1073%2FPNAS.102179699

Canonical structures for the hypervariable regions of immunoglobulins

21 January 2018

1 reference

https://api.crossref.org/works/10.1073%2FPNAS.102179699

Conformational sampling using high-temperature molecular dynamics

21 January 2018

1 reference

https://api.crossref.org/works/10.1073%2FPNAS.102179699

Predicting antibody hypervariable loop conformation. I. Ensembles of random conformations for ringlike structures

21 January 2018

1 reference

https://api.crossref.org/works/10.1073%2FPNAS.102179699

21 January 2018

Identifiers

DOI

10.1073/PNAS.102179699

1 reference

30 July 2017

0 references

1 reference

30 July 2017

1 reference