(Q40565548)

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Potential for dramatic improvement in sequence alignment against structures of remote homologous proteins by extracting structural information from multiple structure alignment

scientific article published on September 2003

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scholarly article

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Europe PubMed Central

PubMed publication ID

21 September 2017

Potential for dramatic improvement in sequence alignment against structures of remote homologous proteins by extracting structural information from multiple structure alignment (English)

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Europe PubMed Central

PubMed publication ID

21 September 2017

sequence alignment

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based on heuristic

inferred from title

1

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Europe PubMed Central

PubMed publication ID

21 September 2017

author name string

Mats Lindstam

2

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Europe PubMed Central

PubMed publication ID

21 September 2017

Johan Unge

3

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Europe PubMed Central

PubMed publication ID

21 September 2017

Carsten Peterson

4

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21 September 2017

Guoguang Lu

5

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21 September 2017

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publication date

1 September 2003

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21 September 2017

Journal of Molecular Biology

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21 September 2017

332

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21 September 2017

1

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21 September 2017

127-142

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21 September 2017

Knowledge-based prediction of protein structures and the design of novel molecules

1 reference

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1 reference

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Pairwise sequence alignment below the twilight zone

1 reference

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Comparative protein structure modeling of genes and genomes

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Misleading local sequence alignments: implications for comparative protein modelling.

1 reference

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Twilight zone of protein sequence alignments

1 reference

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Analysis and assessment of comparative modeling predictions in CASP4.

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Hidden Markov models in computational biology. Applications to protein modeling

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1 reference

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An integrated approach to the analysis and modeling of protein sequences and structures. I. Protein structural alignment and a quantitative measure for protein structural distance.

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A Method to Identify Protein Sequences That Fold into a Known Three-Dimensional Structure

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Sequence-structure matching in globular proteins: application to supersecondary and tertiary structure determination

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Residue-residue potentials with a favorable contact pair term and an unfavorable high packing density term, for simulation and threading.

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Derivation of protein-specific pair potentials based on weak sequence fragment similarity

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Sequence-structure specificity of a knowledge based energy function at the secondary structure level.

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Enhanced genome annotation using structural profiles in the program 3D-PSSM

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GenTHREADER: an efficient and reliable protein fold recognition method for genomic sequences

1 reference

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Combination of threading potentials and sequence profiles improves fold recognition.

1 reference

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7 January 2021

SCOP: a structural classification of proteins database for the investigation of sequences and structures

1 reference

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The ASTRAL compendium for protein structure and sequence analysis

1 reference

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CLUSTAL W: improving the sensitivity of progressive multiple sequence alignment through sequence weighting, position-specific gap penalties and weight matrix choice

1 reference

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T-Coffee: A novel method for fast and accurate multiple sequence alignment

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DIALIGN 2: improvement of the segment-to-segment approach to multiple sequence alignment

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Amino acid substitution matrices from protein blocks

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Solvent-accessible surfaces of proteins and nucleic acids

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Solvation energy in protein folding and binding

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Three-dimensional structure of glutathione S-transferase from Arabidopsis thaliana at 2.2 A resolution: structural characterization of herbicide-conjugating plant glutathione S-transferases and a novel active site architecture

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Identifiers

10.1016/S0022-2836(03)00858-1

1 reference

Europe PubMed Central

PubMed publication ID

21 September 2017

PubMed publication ID

1 reference

Europe PubMed Central

PubMed publication ID

21 September 2017

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