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GSScore: a novel Graphormer-based shell-like scoring method for protein-ligand docking.

• Authors : Guo L; School of Computer Science and Engineering, Central South University, Rd. Lu Shan Nan, 410083, Changsha, P.R. China.; Hunan Provincial Key Lab on Bioinformatics, Central South University, Rd. Lu Shan Nan, 410083, Changsha, P.R. China.

Subjects: Proteins*/Proteins*/Proteins*/chemistry ; Proteins*/Proteins*/Proteins*/metabolism ; Molecular Docking Simulation*

• Source: Briefings in bioinformatics [Brief Bioinform] 2024 Mar 27; Vol. 25 (3).Publisher: Oxford University Press Country of Publication: England NLM ID: 100912837 Publication Model: Print Cited Medium:

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Accurate prediction of inter-protein residue-residue contacts for homo-oligomeric protein complexes.

• Authors : Yan Y; School of Physics, Huazhong University of Science and Technology, Wuhan, Hubei 430074, PR China.; Huang SY

Subjects: Deep Learning* ; Molecular Docking Simulation* ; Software*

• Source: Briefings in bioinformatics [Brief Bioinform] 2021 Sep 02; Vol. 22 (5).Publisher: Oxford University Press Country of Publication: England NLM ID: 100912837 Publication Model: Print Cited Medium:

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iScore: a novel graph kernel-based function for scoring protein-protein docking models.

• Authors : Geng C; Bijvoet Center for Biomolecular Research, Faculty of Science - Chemistry, Utrecht University, Utrecht 3584 CH, The Netherlands.; Jung Y

Subjects: Algorithms* ; Computational Biology*/Computational Biology*/Computational Biology*/methods ; Molecular Docking Simulation*/Molecular Docking Simulation*/Molecular Docking Simulation*/methods

• Source: Bioinformatics (Oxford, England) [Bioinformatics] 2020 Jan 01; Vol. 36 (1), pp. 112-121.Publisher: Oxford University Press Country of Publication: England NLM ID: 9808944 Publication Model: Print Cited Medium:

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Protein Interaction Z Score Assessment (PIZSA): an empirical scoring scheme for evaluation of protein-protein interactions.

• Authors : Roy AA; Indian Institute of Science Education and Research, Pune, Dr Homi Bhabha Road, Pashan, Pune 411008, India.; Dhawanjewar AS

Subjects: Algorithms* ; Software*; Hemoglobins/Hemoglobins/Hemoglobins/*chemistry

• Source: Nucleic acids research [Nucleic Acids Res] 2019 Jul 02; Vol. 47 (W1), pp. W331-W337.Publisher: Oxford University Press Country of Publication: England NLM ID: 0411011 Publication Model: Print Cited Medium:

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HawkDock: a web server to predict and analyze the protein-protein complex based on computational docking and MM/GBSA.

• Authors : Weng G; Hangzhou Institute of Innovative Medicine, College of Pharmaceutical Sciences, Zhejiang University, Hangzhou, Zhejiang 310058, China.; Wang E

Subjects: Algorithms* ; Software*; Molecular Docking Simulation/Molecular Docking Simulation/Molecular Docking Simulation/*methods

• Source: Nucleic acids research [Nucleic Acids Res] 2019 Jul 02; Vol. 47 (W1), pp. W322-W330.Publisher: Oxford University Press Country of Publication: England NLM ID: 0411011 Publication Model: Print Cited Medium:

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LightDock: a new multi-scale approach to protein-protein docking.

• Authors : Jiménez-García B; Life Sciences Department, Barcelona Supercomputing Center (BSC), 08034 Barcelona, Spain.; Roel-Touris J

Subjects: Molecular Docking Simulation* ; Software*; Computational Biology/Computational Biology/Computational Biology/*methods

• Source: Bioinformatics (Oxford, England) [Bioinformatics] 2018 Jan 01; Vol. 34 (1), pp. 49-55.Publisher: Oxford University Press Country of Publication: England NLM ID: 9808944 Publication Model: Print Cited Medium:

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The pepATTRACT web server for blind, large-scale peptide-protein docking.

• Authors : de Vries SJ; INSERM UMR-S 973/Université Paris Diderot/Sorbonne Paris Cité/RPBS, Paris 75205, France.; Rey J

Subjects: Software*; Molecular Docking Simulation/Molecular Docking Simulation/Molecular Docking Simulation/*methods ; Peptides/Peptides/Peptides/*chemistry

• Source: Nucleic acids research [Nucleic Acids Res] 2017 Jul 03; Vol. 45 (W1), pp. W361-W364.Publisher: Oxford University Press Country of Publication: England NLM ID: 0411011 Publication Model: Print Cited Medium:

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Agricola

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LIGSIFT: an open-source tool for ligand structural alignment and virtual screening.

• Authors : Roy A; Center for the Study of Systems Biology, School of Biology, Georgia Institute of Technology, Atlanta, GA 30076, USA.; Skolnick J

Subjects: Algorithms* ; Databases, Chemical* ; Molecular Docking Simulation*

• Source: Bioinformatics (Oxford, England) [Bioinformatics] 2015 Feb 15; Vol. 31 (4), pp. 539-44. Date of Electronic Publication: 2014 Oct 21.Publisher: Oxford University Press Country of Publication: England NLM ID: 9808944 Publication Model: Print-Electronic Cited

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

• Authors : Heo L; Department of Chemistry, Seoul National University, Seoul 151-747, Korea.; Shin WH

Subjects: Software*; Molecular Docking Simulation/Molecular Docking Simulation/Molecular Docking Simulation/*methods ; Proteins/Proteins/Proteins/*chemistry

• Source: Nucleic acids research [Nucleic Acids Res] 2014 Jul; Vol. 42 (Web Server issue), pp. W210-4. Date of Electronic Publication: 2014 Apr 21.Publisher: Oxford University Press Country of Publication: England NLM ID: 0411011 Publication Model: Print-Electronic Cited

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