Chaok Seok

Publication Activity (10 Years)

Years Active: 2003-2023
Publications (10 Years): 18

Top Topics

Protein Structure

Top Venues

Nucleic Acids Res.

J. Chem. Inf. Model.

J. Comput. Chem.

J. Comput. Aided Mol. Des.

Publications

Seho Lee, Chaok Seok, Hahnbeom Park
Benchmarking applicability of medium-resolution cryo-EM protein structures for structure-based drug design. J. Comput. Chem. 44 (14) (2023)
Changsoo Lee, Jinsol Yang, Sohee Kwon, Chaok Seok
GalaxyDock2-HEME: Protein-ligand docking for heme proteins. J. Comput. Chem. 44 (14) (2023)
Jiho Sim, Sohee Kwon, Chaok Seok
HProteome-BSite: predicted binding sites and ligands in human 3D proteome. Nucleic Acids Res. 51 (D1) (2023)
Sangwoo Park, Chaok Seok
GalaxyWater-CNN: Prediction of Water Positions on the Protein Structure by a 3D-Convolutional Neural Network. J. Chem. Inf. Model. 62 (13) (2022)
Lim Heo, Sangwoo Park, Chaok Seok
GalaxyWater-wKGB: Prediction of Water Positions on Protein Structure Using wKGB Statistical Potential. J. Chem. Inf. Model. 61 (5) (2021)
Taeyong Park, Jonghun Won, Minkyung Baek, Chaok Seok
docking. Nucleic Acids Res. 49 (Webserver-Issue) (2021)
Beomchang Kang, Chaok Seok, Juyong Lee
Prediction of Molecular Electronic Transitions Using Random Forests. J. Chem. Inf. Model. 60 (12) (2020)
Jinsol Yang, Sohee Kwon, Sang-Hun Bae, Kyoung Mii Park, Changsik Yoon, Ji-Hyun Lee, Chaok Seok
GalaxySagittarius: Structure- and Similarity-Based Prediction of Protein Targets for Druglike Compounds. J. Chem. Inf. Model. 60 (6) (2020)
Gyu Rie Lee, Jonghun Won, Lim Heo, Chaok Seok
GalaxyRefine2: simultaneous refinement of inaccurate local regions and overall protein structure. Nucleic Acids Res. 47 (Webserver-Issue) (2019)
Jinsol Yang, Minkyung Baek, Chaok Seok
GalaxyDock3: Protein-ligand docking that considers the full ligand conformational flexibility. J. Comput. Chem. 40 (31) (2019)
Taeyong Park, Minkyung Baek, Hasup Lee, Chaok Seok
GalaxyTongDock: Symmetric and asymmetric ab initio protein-protein docking web server with improved energy parameters. J. Comput. Chem. 40 (27) (2019)
Jonghun Won, Gyu Rie Lee, Hahnbeom Park, Chaok Seok
GalaxyGPCRloop: Template-Based and Ab Initio Structure Sampling of the Extracellular Loops of G-Protein-Coupled Receptors. J. Chem. Inf. Model. 58 (6) (2018)
Minkyung Baek, Taeyong Park, Lim Heo, Chiwook Park, Chaok Seok
GalaxyHomomer: a web server for protein homo-oligomer structure prediction from a monomer sequence or structure. Nucleic Acids Res. 45 (Webserver-Issue) (2017)
Juyong Lee, Florentina Tofoleanu, Frank C. Pickard IV, Gerhard König, Jing Huang, Ana Damjanovic, Minkyung Baek, Chaok Seok, Bernard R. Brooks
Absolute binding free energy calculations of CBClip host-guest systems in the SAMPL5 blind challenge. J. Comput. Aided Mol. Des. 31 (1) (2017)
Florentina Tofoleanu, Juyong Lee, Frank C. Pickard IV, Gerhard König, Jing Huang, Minkyung Baek, Chaok Seok, Bernard R. Brooks
Absolute binding free energies for octa-acids and guests in SAMPL5 - Evaluating binding free energies for octa-acid and guest complexes in the SAMPL5 blind challenge. J. Comput. Aided Mol. Des. 31 (1) (2017)
Minkyung Baek, Woong-Hee Shin, Hwan Won Chung, Chaok Seok
GalaxyDock BP2 score: a hybrid scoring function for accurate protein-ligand docking. J. Comput. Aided Mol. Des. 31 (7) (2017)
Gyu Rie Lee, Chaok Seok
Galaxy7TM: flexible GPCR-ligand docking by structure refinement. Nucleic Acids Res. 44 (Webserver-Issue) (2016)
Woong-Hee Shin, Gyu Rie Lee, Chaok Seok
Evaluation of GalaxyDock Based on the Community Structure-Activity Resource 2013 and 2014 Benchmark Studies. J. Chem. Inf. Model. 56 (6) (2016)
Hasup Lee, Lim Heo, Myeong Sup Lee, Chaok Seok
GalaxyPepDock: a protein-peptide docking tool based on interaction similarity and energy optimization. Nucleic Acids Res. 43 (Webserver-Issue) (2015)
Lim Heo, Woong-Hee Shin, Myeong Sup Lee, Chaok Seok
GalaxySite: ligand-binding-site prediction by using molecular docking. Nucleic Acids Res. 42 (Webserver-Issue) (2014)
Hasup Lee, Hahnbeom Park, Junsu Ko, Chaok Seok
GalaxyGemini: a web server for protein homo-oligomer structure prediction based on similarity. Bioinform. 29 (8) (2013)
Woong-Hee Shin, Jae-Kwan Kim, Deok-Soo Kim, Chaok Seok
GalaxyDock2: Protein-ligand docking using beta-complex and global optimization. J. Comput. Chem. 34 (30) (2013)
Lim Heo, Hahnbeom Park, Chaok Seok
GalaxyRefine: protein structure refinement driven by side-chain repacking. Nucleic Acids Res. 41 (Webserver-Issue) (2013)
Junsu Ko, Hahnbeom Park, Chaok Seok
GalaxyTBM: template-based modeling by building a reliable core and refining unreliable local regions. BMC Bioinform. 13 (2012)
Woong-Hee Shin, Chaok Seok
GalaxyDock: Protein-Ligand Docking with Flexible Protein Side-chains. J. Chem. Inf. Model. 52 (12) (2012)
Junsu Ko, Hahnbeom Park, Lim Heo, Chaok Seok
GalaxyWEB server for protein structure prediction and refinement. Nucleic Acids Res. 40 (Web-Server-Issue) (2012)
Woong-Hee Shin, Lim Heo, Juyong Lee, Junsu Ko, Chaok Seok, Jooyoung Lee
LigDockCSA: Protein-ligand docking using conformational space annealing. J. Comput. Chem. 32 (15) (2011)
Junsu Ko, Dongseon Lee, Hahnbeom Park, Evangelos A. Coutsias, Julian Lee, Chaok Seok
The FALC-Loop web server for protein loop modeling. Nucleic Acids Res. 39 (Web-Server-Issue) (2011)
Evangelos A. Coutsias, Chaok Seok, Ken A. Dill
Rotational superposition and least squares: The SVD and quaternions approaches yield identical results. Reply to the preceding comment by G. Kneller. J. Comput. Chem. 26 (15) (2005)
Evangelos A. Coutsias, Chaok Seok, Ken A. Dill
Using quaternions to calculate RMSD. J. Comput. Chem. 25 (15) (2004)
Evangelos A. Coutsias, Chaok Seok, Matthew P. Jacobson, Ken A. Dill
A kinematic view of loop closure. J. Comput. Chem. 25 (4) (2004)
Chaok Seok, J. Ben Rosen, John D. Chodera, Ken A. Dill
MOPED: Method for optimizing physical energy parameters using decoys. J. Comput. Chem. 24 (1) (2003)