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ORCIDChaok Seok
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- affiliation: Seoul National University, Department of Chemistry, Seoul, Republic of Korea
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Journal Articles
- 2024
[j34]Hakjean Kim, Seongok Ryu, Nuri Jung
, Jinsol Yang, Chaok Seok:
CSearch: chemical space search via virtual synthesis and global optimization. J. Cheminformatics 16(1): 137 (2024)- [j33]Hyeonuk Woo, Yubeen Kim, Chaok Seok:
Protein loop structure prediction by community-based deep learning and its application to antibody CDR H3 loop modeling. PLoS Comput. Biol. 20(6): 1012239 (2024) - 2023
- [j32]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): 1360-1368 (2023) - [j31]Changsoo Lee, Jinsol Yang, Sohee Kwon, Chaok Seok:
GalaxyDock2-HEME: Protein-ligand docking for heme proteins. J. Comput. Chem. 44(14): 1369-1380 (2023) - [j30]Jiho Sim, Sohee Kwon, Chaok Seok:
HProteome-BSite: predicted binding sites and ligands in human 3D proteome. Nucleic Acids Res. 51(D1): 403-408 (2023) - 2022
- [j29]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): 3157-3168 (2022) - 2021
- [j28]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): 2283-2293 (2021) - [j27]Taeyong Park, Jonghun Won, Minkyung Baek, Chaok Seok:
GalaxyHeteromer: protein heterodimer structure prediction by template-based and ab initio docking. Nucleic Acids Res. 49(Webserver-Issue): 237-241 (2021) - 2020
- [j26]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): 3246-3254 (2020) - [j25]Beomchang Kang, Chaok Seok, Juyong Lee:
Prediction of Molecular Electronic Transitions Using Random Forests. J. Chem. Inf. Model. 60(12): 5984-5994 (2020) - 2019
- [j24]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): 2413-2417 (2019) - [j23]Jinsol Yang, Minkyung Baek, Chaok Seok:
GalaxyDock3: Protein-ligand docking that considers the full ligand conformational flexibility. J. Comput. Chem. 40(31): 2739-2748 (2019) - [j22]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): W451-W455 (2019) - 2018
- [j21]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): 1234-1243 (2018) - 2017
- [j20]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): 71-85 (2017) - [j19]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): 107-118 (2017) - [j18]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): 653-666 (2017) - [j17]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): W320-W324 (2017) - 2016
- [j16]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): 988-995 (2016) - [j15]Gyu Rie Lee, Chaok Seok:
Galaxy7TM: flexible GPCR-ligand docking by structure refinement. Nucleic Acids Res. 44(Webserver-Issue): W502-W506 (2016) - 2015
- [j14]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): W431-W435 (2015) - 2014
- [j13]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): 210-214 (2014) - 2013
- [j12]Hasup Lee, Hahnbeom Park, Junsu Ko, Chaok Seok:
GalaxyGemini: a web server for protein homo-oligomer structure prediction based on similarity. Bioinform. 29(8): 1078-1080 (2013) - [j11]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): 2647-2656 (2013) - [j10]Lim Heo, Hahnbeom Park, Chaok Seok:
GalaxyRefine: protein structure refinement driven by side-chain repacking. Nucleic Acids Res. 41(Webserver-Issue): 384-388 (2013) - 2012
- [j9]Junsu Ko, Hahnbeom Park, Chaok Seok:
GalaxyTBM: template-based modeling by building a reliable core and refining unreliable local regions. BMC Bioinform. 13: 198 (2012) - [j8]Woong-Hee Shin, Chaok Seok:
GalaxyDock: Protein-Ligand Docking with Flexible Protein Side-chains. J. Chem. Inf. Model. 52(12): 3225-3232 (2012) - [j7]Junsu Ko, Hahnbeom Park, Lim Heo, Chaok Seok:
GalaxyWEB server for protein structure prediction and refinement. Nucleic Acids Res. 40(Web-Server-Issue): 294-297 (2012) - 2011
- [j6]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): 3226-3232 (2011) - [j5]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): 210-214 (2011) - 2005
- [j4]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): 1663-1665 (2005) - 2004
- [j3]Evangelos A. Coutsias, Chaok Seok, Matthew P. Jacobson, Ken A. Dill:
A kinematic view of loop closure. J. Comput. Chem. 25(4): 510-528 (2004) - [j2]Evangelos A. Coutsias, Chaok Seok, Ken A. Dill:
Using quaternions to calculate RMSD. J. Comput. Chem. 25(15): 1849-1857 (2004) - 2003
- [j1]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): 89-97 (2003)
Coauthor Index
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