GalaxySite: ligand-binding-site prediction by using molecular docking

GalaxyGemini: a web server for protein homo-oligomer structure prediction based on similarity

(2013) Hasup Lee et al.   BIOINFORMATICS

Protein–ligand binding site recognition using complementary binding-specific substructure comparison and sequence profile alignment

(2013) Jianyi Yang et al.   BIOINFORMATICS

GalaxyDock2: Protein-ligand docking using beta-complex and global optimization

(2013) Woong-Hee Shin et al.   JOURNAL OF COMPUTATIONAL CHEMISTRY

The FunFOLD2 server for the prediction of protein–ligand interactions

(2013) Daniel B. Roche et al.   NUCLEIC ACIDS RESEARCH

GalaxyRefine: protein structure refinement driven by side-chain repacking

(2013) Lim Heo et al.   NUCLEIC ACIDS RESEARCH

Assessment of ligand binding site predictions in CASP10

(2013) Tiziano Gallo Cassarino et al.   PROTEINS-STRUCTURE FUNCTION AND BIOINFORMATICS

GalaxyTBM: template-based modeling by building a reliable core and refining unreliable local regions

(2012) Junsu Ko et al.   BMC BIOINFORMATICS

GalaxyDock: Protein–Ligand Docking with Flexible Protein Side-chains

(2012) Woong-Hee Shin et al.   Journal of Chemical Information and Modeling

GalaxyWEB server for protein structure prediction and refinement

(2012) J. Ko et al.   NUCLEIC ACIDS RESEARCH

LigDockCSA: Protein-ligand docking using conformational space annealing

(2011) Woong-Hee Shin et al.   JOURNAL OF COMPUTATIONAL CHEMISTRY

firestar —advances in the prediction of functionally important residues

(2011) Gonzalo Lopez et al.   NUCLEIC ACIDS RESEARCH

Assessment of ligand-binding residue predictions in CASP9

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

Ligand-binding site prediction of proteins based on known fragment–fragment interactions

(2010) Kota Kasahara et al.   BIOINFORMATICS

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

(2010) Jinrui Xu et al.   BIOINFORMATICS

3DLigandSite: predicting ligand-binding sites using similar structures

(2010) Mark N. Wass et al.   NUCLEIC ACIDS RESEARCH

Assessment of ligand binding residue predictions in CASP8

(2009) Gonzalo López et al.   PROTEINS-STRUCTURE FUNCTION AND BIOINFORMATICS

A novel and efficient tool for locating and characterizing protein cavities and binding sites

(2009) Ashutosh Tripathi et al.   PROTEINS-STRUCTURE FUNCTION AND BIOINFORMATICS

FINDSITELHM: A Threading-Based Approach to Ligand Homology Modeling

(2009) Michal Brylinski et al.   PLoS Computational Biology

All-atom chain-building by optimizing MODELLER energy function using conformational space annealing

(2008) Keehyoung Joo et al.   PROTEINS-STRUCTURE FUNCTION AND BIOINFORMATICS