(Q33320836)

English

The minimized dead-end elimination criterion and its application to protein redesign in a hybrid scoring and search algorithm for computing partition functions over molecular ensembles

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scholarly article

1 reference

Europe PubMed Central

PubMed publication ID

25 July 2017

The minimized dead-end elimination criterion and its application to protein redesign in a hybrid scoring and search algorithm for computing partition functions over molecular ensembles (English)

1 reference

Europe PubMed Central

PubMed publication ID

25 July 2017

Ivelin S. Georgiev

1

object named as

Ivelin Georgiev

1 reference

Europe PubMed Central

PubMed publication ID

25 July 2017

author name string

Ryan H Lilien

2

1 reference

Europe PubMed Central

PubMed publication ID

25 July 2017

Bruce R Donald

3

1 reference

Europe PubMed Central

PubMed publication ID

25 July 2017

publication date

1 July 2008

1 reference

Europe PubMed Central

PubMed publication ID

25 July 2017

Journal of Computational Chemistry

1 reference

Europe PubMed Central

PubMed publication ID

25 July 2017

29

1 reference

Europe PubMed Central

PubMed publication ID

25 July 2017

10

1 reference

Europe PubMed Central

PubMed publication ID

25 July 2017

1527-1542

1 reference

Europe PubMed Central

PubMed publication ID

25 July 2017

The dead-end elimination theorem and its use in protein side-chain positioning

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3263346

21 June 2018

Dead-end elimination with backbone flexibility

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3263346

21 June 2018

Nonribosomal peptides: from genes to products

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3263346

21 June 2018

De novo design of foldable proteins with smooth folding funnel: automated negative design and experimental verification

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3263346

21 June 2018

Computational design of receptor and sensor proteins with novel functions

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3263346

21 June 2018

Protein design is NP-hard

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3263346

21 June 2018

De novo determination of peptide structure with solid-state magic-angle spinning NMR spectroscopy.

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3263346

21 June 2018

Exploitation of the selectivity-conferring code of nonribosomal peptide synthetases for the rational design of novel peptide antibiotics

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3263346

21 June 2018

Fast and accurate side-chain topology and energy refinement (FASTER) as a new method for protein structure optimization.

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3263346

21 June 2018

Automatic procedures for protein design

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3263346

21 June 2018

Side-chain repacking calculations for predicting structures and stabilities of heterodimeric coiled coils

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3263346

21 June 2018

Enzyme-like proteins by computational design

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3263346

21 June 2018

Conversion of a maltose receptor into a zinc biosensor by computational design

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3263346

21 June 2018

The penultimate rotamer library

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3263346

21 June 2018

Construction of hybrid peptide synthetases by module and domain fusions

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3263346

21 June 2018

The specificity-conferring code of adenylation domains in nonribosomal peptide synthetases

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3263346

21 June 2018

Computational protein design

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3263346

21 June 2018

Effective energy function for proteins in solution

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3263346

21 June 2018

Exploring the conformational space of protein side chains using dead-end elimination and the A* algorithm

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3263346

21 June 2018

De novo protein design: fully automated sequence selection

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3263346

21 June 2018

Structural basis for the activation of phenylalanine in the non-ribosomal biosynthesis of gramicidin S

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3263346

21 June 2018

The fuzzy-end elimination theorem: correctly implementing the side chain placement algorithm based on the dead-end elimination theorem

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3263346

21 June 2018

Efficient rotamer elimination applied to protein side-chains and related spin glasses

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3263346

21 June 2018

Tertiary templates for proteins. Use of packing criteria in the enumeration of allowed sequences for different structural classes

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3263346

21 June 2018

Construction of new ligand binding sites in proteins of known structure

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3263346

21 June 2018

Redesigning the PheA domain of gramicidin synthetase leads to a new understanding of the enzyme's mechanism and selectivity.

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3263346

31 October 2018

Improved Pruning algorithms and Divide-and-Conquer strategies for Dead-End Elimination, with application to protein design.

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3263346

31 October 2018

A novel ensemble-based scoring and search algorithm for protein redesign and its application to modify the substrate specificity of the gramicidin synthetase a phenylalanine adenylation enzyme

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3263346

31 October 2018

Preprocessing of rotamers for protein design calculations

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3263346

31 October 2018

Computational design of a biologically active enzyme

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3263346

31 October 2018

Generalized dead-end elimination algorithms make large-scale protein side-chain structure prediction tractable: implications for protein design and structural genomics.

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3263346

31 October 2018

Side-chain flexibility in proteins upon ligand binding.

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3263346

31 October 2018

Predictive, structure-based model of amino acid recognition by nonribosomal peptide synthetase adenylation domains

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3263346

31 October 2018

Harnessing the biosynthetic code: combinations, permutations, and mutations

1 reference

https://pubmed.ncbi.nlm.nih.gov/18293294

12 December 2020

based on heuristic

inferred from PubMed ID database lookup

Rational Design of Peptide Antibiotics by Targeted Replacement of Bacterial and Fungal Domains

1 reference

https://pubmed.ncbi.nlm.nih.gov/18293294

12 December 2020

based on heuristic

inferred from PubMed ID database lookup

Targeted alteration of the substrate specificity of peptide synthetases by rational module swapping

1 reference

https://pubmed.ncbi.nlm.nih.gov/18293294

12 December 2020

based on heuristic

inferred from PubMed ID database lookup

Dipeptide formation on engineered hybrid peptide synthetases

1 reference

https://pubmed.ncbi.nlm.nih.gov/18293294

12 December 2020

based on heuristic

inferred from PubMed ID database lookup

Identifiers

10.1002/JCC.20909

1 reference

Europe PubMed Central

PubMed publication ID

25 July 2017

DBLP publication ID

journals/jcc/GeorgievLD08

1 reference

DBLP Dataset 2021-01-02

28 January 2021

PMC publication ID

1 reference

Europe PubMed Central

PubMed publication ID

25 July 2017

PubMed publication ID

1 reference

Europe PubMed Central

PubMed publication ID

25 July 2017

ResearchGate publication ID

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