Alignment of distantly related protein structures: algorithm, bound and implications to homology modeling

A multiple-template approach to protein threading

(2011) Jian Peng et al.   PROTEINS-STRUCTURE FUNCTION AND BIOINFORMATICS

Fragment-free approach to protein folding using conditional neural fields

(2010) F. Zhao et al.   BIOINFORMATICS

Low-homology protein threading

(2010) J. Peng et al.   BIOINFORMATICS

How significant is a protein structure similarity with TM-score = 0.5?

(2010) Jinrui Xu et al.   BIOINFORMATICS

Multiple structure alignment and consensus identification for proteins

(2010) Ivaylo Ilinkin et al.   BMC BIOINFORMATICS

A Probabilistic and Continuous Model of Protein Conformational Space for Template-Free Modeling

(2010) Feng Zhao et al.   JOURNAL OF COMPUTATIONAL BIOLOGY

Alignment of multiple protein structures based on sequence and structure features

(2009) M.S. Madhusudhan et al.   PROTEIN ENGINEERING DESIGN & SELECTION

Predicting Protein Ligand Binding Sites by Combining Evolutionary Sequence Conservation and 3D Structure

(2009) John A. Capra et al.   PLoS Computational Biology

MultiBind and MAPPIS: webservers for multiple alignment of protein 3D-binding sites and their interactions

(2008) A. Shulman-Peleg et al.   NUCLEIC ACIDS RESEARCH

Matt: Local Flexibility Aids Protein Multiple Structure Alignment

(2008) Matthew Menke et al.   PLoS Computational Biology

Protein cutoff scanning: A comparative analysis of cutoff dependent and cutoff free methods for prospecting contacts in proteins

(2008) Carlos H. da Silveira et al.   PROTEINS-STRUCTURE FUNCTION AND BIOINFORMATICS

A multi-template combination algorithm for protein comparative modeling

(2008) Jianlin Cheng   BMC STRUCTURAL BIOLOGY

CLePAPS: FAST PAIR ALIGNMENT OF PROTEIN STRUCTURES BASED ON CONFORMATIONAL LETTERS

(2008) SHENG WANG et al.   Journal of Bioinformatics and Computational Biology