Assessment of template based protein structure predictions in CASP9

Improved molecular replacement by density- and energy-guided protein structure optimization

(2011) Frank DiMaio et al.   NATURE

Target highlights in CASP9: Experimental target structures for the critical assessment of techniques for protein structure prediction

(2011) Andriy Kryshtafovych et al.   PROTEINS-STRUCTURE FUNCTION AND BIOINFORMATICS

CASP9 target classification

(2011) Lisa N. Kinch et al.   PROTEINS-STRUCTURE FUNCTION AND BIOINFORMATICS

Automated tertiary structure prediction with accurate local model quality assessment using the intfold-ts method

(2011) Liam J. McGuffin et al.   PROTEINS-STRUCTURE FUNCTION AND BIOINFORMATICS

Evaluation of model quality predictions in CASP9

(2011) Andriy Kryshtafovych et al.   PROTEINS-STRUCTURE FUNCTION AND BIOINFORMATICS

Assessment of ligand-binding residue predictions in CASP9

(2011) Tobias Schmidt et al.   PROTEINS-STRUCTURE FUNCTION AND BIOINFORMATICS

CASP9 results compared to those of previous casp experiments

(2011) Andriy Kryshtafovych et al.   PROTEINS-STRUCTURE FUNCTION AND BIOINFORMATICS

Computational Design of Proteins Targeting the Conserved Stem Region of Influenza Hemagglutinin

(2011) S. J. Fleishman et al.   SCIENCE

OpenStructure: a flexible software framework for computational structural biology

(2010) Marco Biasini et al.   BIOINFORMATICS

Detection of distant evolutionary relationships between protein families using theory of sequence profile-profile comparison

(2010) Mindaugas Margelevičius et al.   BMC BIOINFORMATICS

Hidden Markov model speed heuristic and iterative HMM search procedure

(2010) L Steven Johnson et al.   BMC BIOINFORMATICS

Predicting protein structures with a multiplayer online game

(2010) Seth Cooper et al.   NATURE

SUPERFAMILY 1.75 including a domain-centric gene ontology method

(2010) D. A. de Lima Morais et al.   NUCLEIC ACIDS RESEARCH

CDD: a Conserved Domain Database for the functional annotation of proteins

(2010) A. Marchler-Bauer et al.   NUCLEIC ACIDS RESEARCH

Gene3D: merging structure and function for a Thousand genomes

(2009) Jonathan Lees et al.   NUCLEIC ACIDS RESEARCH

CASP8 results in context of previous experiments

(2009) Andriy Kryshtafovych et al.   PROTEINS-STRUCTURE FUNCTION AND BIOINFORMATICS

Target domain definition and classification in CASP8

(2009) Michael L. Tress et al.   PROTEINS-STRUCTURE FUNCTION AND BIOINFORMATICS

The other 90% of the protein: Assessment beyond the Cαs for CASP8 template-based and high-accuracy models

(2009) Daniel A. Keedy et al.   PROTEINS-STRUCTURE FUNCTION AND BIOINFORMATICS

Evaluation of template-based models in CASP8 with standard measures

(2009) Domenico Cozzetto et al.   PROTEINS-STRUCTURE FUNCTION AND BIOINFORMATICS

Improving physical realism, stereochemistry, and side-chain accuracy in homology modeling: Four approaches that performed well in CASP8

(2009) Elmar Krieger et al.   PROTEINS-STRUCTURE FUNCTION AND BIOINFORMATICS

Fast and accurate automatic structure prediction with HHpred

(2009) Andrea Hildebrand et al.   PROTEINS-STRUCTURE FUNCTION AND BIOINFORMATICS

Outcome of a Workshop on Applications of Protein Models in Biomedical Research

(2009) Torsten Schwede et al.   STRUCTURE

Analysis of CASP8 targets, predictions and assessment methods

(2009) S. Shi et al.   Database-The Journal of Biological Databases and Curation

Discovery of a Dipeptide Epimerase Enzymatic Function Guided by Homology Modeling and Virtual Screening

(2008) Chakrapani Kalyanaraman et al.   STRUCTURE