ConSurf 2010: calculating evolutionary conservation in sequence and structure of proteins and nucleic acids (original) (raw)

The ConSurf-DB: pre-calculated evolutionary conservation profiles of protein structures

Nir Ben-tal

Nucleic Acids Research, 2009

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ConSurf 2005: the projection of evolutionary conservation scores of residues on protein structures

Fabian Glaser, E. Martz

Nucleic Acids Research, 2005

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ConSurf: Using Evolutionary Data to Raise Testable Hypotheses about Protein Function

N. Ben-tal

Israel Journal of Chemistry, 2013

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ConSurf 2016: an improved methodology to estimate and visualize evolutionary conservation in macromolecules

N. Ben-tal

Nucleic Acids Research, 2016

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The ConSurf-HSSP database: The mapping of evolutionary conservation among homologs onto PDB structures

Nir Ben-tal

Proteins: Structure, Function, and Bioinformatics, 2004

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NASP: a parallel program for identifying evolutionarily conserved nucleic acid secondary structures from nucleotide sequence alignments

YVES SEMEGNI

Bioinformatics, 2011

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A Universal Evolutionary Index for Amino Acid Changes

Gerald Wyckoff

Molecular Biology and Evolution, 2004

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MultiSeq: unifying sequence and structure data for evolutionary analysis

Dan Wright, Zaida Luthey-schulten

BMC bioinformatics, 2006

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ConSeq: the identification of functionally and structurally important residues in protein sequences

N. Ben-tal, rita casadio

Bioinformatics/computer Applications in The Biosciences, 2004

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PANDIT: an evolution-centric database of protein and associated nucleotide domains with inferred trees

Nicolas Rodriguez

Nucleic Acids Research, 2006

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Evolution of protein sequences and structures

William Pearson

Journal of Molecular Biology, 1999

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Assessment of the probabilities for evolutionary structural changes in protein folds

David Gilbert

Bioinformatics, 2007

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Molecular Biology and Evolution

Naoko Takezaki

WORLD SCIENTIFIC eBooks, 2012

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Site interdependence attributed to tertiary structure in amino acid sequence evolution

David Bryant

2005

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UET: a database of evolutionarily-predicted functional determinants of protein sequences that cluster as functional sites in protein structures

Angela Wilkins

Nucleic acids research, 2015

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Structural Approaches to Sequence Evolution

Eduardo Roman

Biological and Medical Physics, Biomedical Engineering, 2007

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ConSSeq: a web-based application for analysis of amino acid conservation based on HSSP database and within context of structure

Roberto Togawa

Bioinformatics, 2004

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Protein evolution along phylogenetic histories under structurally constrained substitution models

Ugo Bastolla

Bioinformatics, 2013

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ProtTest-HPC: fast selection of best-fit models of protein evolution

Guillermo Taboada

2011

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XSuLT: a web server for structural annotation and representation of sequence-structure alignments

Tom Blundell

Nucleic Acids Research, 2017

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Simple and accurate estimation of ancestral protein sequences

Barry Hall

Proceedings of the National Academy of Sciences, 2006

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H2r: Identification of evolutionary important residues by means of an entropy based analysis of multiple sequence alignments

Rainer Merkl

BMC Bioinformatics, 2008

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A Branch-Heterogeneous Model of Protein Evolution for Efficient Inference of Ancestral Sequences

Bastien Boussau

Systematic Biology, 2013

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Synonymous Substitutions Substantially Improve Evolutionary Inference from Highly Diverged Proteins

Hirohisa Kishino

Systematic Biology, 2008

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Accurate Reconstruction of Molecular Phylogenies for Proteins Using Codon and Amino Acid Unified Sequence Alignments (CAUSA)

Shuang-yong Xu

Nature Precedings, 2011

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Prediction of Site-Specific Amino Acid Distributions and Limits of Divergent Evolutionary Changes in Protein Sequences

Eduardo Roman

Molecular Biology and Evolution, 2004

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MEGA: A biologist-centric software for evolutionary analysis of DNA and protein sequences

Sudhir kumar

Briefings in Bioinformatics, 2008

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Trends in protein evolution inferred from sequence and structure analysis

L Aravind

Current Opinion in Structural Biology, 2002

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