158 related articles for article (PubMed ID: 37480347)
1. How Good Are Current Docking Programs at Nucleic Acid-Ligand Docking? A Comprehensive Evaluation.
Jiang D; Zhao H; Du H; Deng Y; Wu Z; Wang J; Zeng Y; Zhang H; Wang X; Wu J; Hsieh CY; Hou T
J Chem Theory Comput; 2023 Aug; 19(16):5633-5647. PubMed ID: 37480347
[TBL] [Abstract][Full Text] [Related]
2. Comprehensive evaluation of ten docking programs on a diverse set of protein-ligand complexes: the prediction accuracy of sampling power and scoring power.
Wang Z; Sun H; Yao X; Li D; Xu L; Li Y; Tian S; Hou T
Phys Chem Chem Phys; 2016 May; 18(18):12964-75. PubMed ID: 27108770
[TBL] [Abstract][Full Text] [Related]
3. NLDock: a Fast Nucleic Acid-Ligand Docking Algorithm for Modeling RNA/DNA-Ligand Complexes.
Feng Y; Zhang K; Wu Q; Huang SY
J Chem Inf Model; 2021 Sep; 61(9):4771-4782. PubMed ID: 34468128
[TBL] [Abstract][Full Text] [Related]
4. Comprehensive Evaluation of 10 Docking Programs on a Diverse Set of Protein-Cyclic Peptide Complexes.
Zhao H; Jiang D; Shen C; Zhang J; Zhang X; Wang X; Nie D; Hou T; Kang Y
J Chem Inf Model; 2024 Mar; 64(6):2112-2124. PubMed ID: 38483249
[TBL] [Abstract][Full Text] [Related]
5. Comparative Assessment of Seven Docking Programs on a Nonredundant Metalloprotein Subset of the PDBbind Refined.
Çınaroğlu SS; Timuçin E
J Chem Inf Model; 2019 Sep; 59(9):3846-3859. PubMed ID: 31460757
[TBL] [Abstract][Full Text] [Related]
6. RmsdXNA: RMSD prediction of nucleic acid-ligand docking poses using machine-learning method.
Tan LH; Kwoh CK; Mu Y
Brief Bioinform; 2024 Mar; 25(3):. PubMed ID: 38695120
[TBL] [Abstract][Full Text] [Related]
7. Assessing the performance of MM/PBSA and MM/GBSA methods. 10. Prediction reliability of binding affinities and binding poses for RNA-ligand complexes.
Jiang D; Du H; Zhao H; Deng Y; Wu Z; Wang J; Zeng Y; Zhang H; Wang X; Wang E; Hou T; Hsieh CY
Phys Chem Chem Phys; 2024 Mar; 26(13):10323-10335. PubMed ID: 38501198
[TBL] [Abstract][Full Text] [Related]
8. Comparative Assessment of Pose Prediction Accuracy in RNA-Ligand Docking.
Agarwal R; T RR; Smith JC
J Chem Inf Model; 2023 Dec; 63(23):7444-7452. PubMed ID: 37972310
[TBL] [Abstract][Full Text] [Related]
9. Comparative Assessment of Docking Programs for Docking and Virtual Screening of Ribosomal Oxazolidinone Antibacterial Agents.
Buckley ME; Ndukwe ARN; Nair PC; Rana S; Fairfull-Smith KE; Gandhi NS
Antibiotics (Basel); 2023 Feb; 12(3):. PubMed ID: 36978331
[TBL] [Abstract][Full Text] [Related]
10. Highly Flexible Ligand Docking: Benchmarking of the DockThor Program on the LEADS-PEP Protein-Peptide Data Set.
Santos KB; Guedes IA; Karl ALM; Dardenne LE
J Chem Inf Model; 2020 Feb; 60(2):667-683. PubMed ID: 31922754
[TBL] [Abstract][Full Text] [Related]
11. rDock: a fast, versatile and open source program for docking ligands to proteins and nucleic acids.
Ruiz-Carmona S; Alvarez-Garcia D; Foloppe N; Garmendia-Doval AB; Juhos S; Schmidtke P; Barril X; Hubbard RE; Morley SD
PLoS Comput Biol; 2014 Apr; 10(4):e1003571. PubMed ID: 24722481
[TBL] [Abstract][Full Text] [Related]
12. Molecular docking of intercalators and groove-binders to nucleic acids using Autodock and Surflex.
Holt PA; Chaires JB; Trent JO
J Chem Inf Model; 2008 Aug; 48(8):1602-15. PubMed ID: 18642866
[TBL] [Abstract][Full Text] [Related]
13. An evaluation of combined strategies for improving the performance of molecular docking.
Xu S; Wang L; Pan X
J Bioinform Comput Biol; 2021 Apr; 19(2):2150003. PubMed ID: 33641636
[TBL] [Abstract][Full Text] [Related]
14. Assessing Molecular Docking Tools to Guide Targeted Drug Discovery of CD38 Inhibitors.
Boittier ED; Tang YY; Buckley ME; Schuurs ZP; Richard DJ; Gandhi NS
Int J Mol Sci; 2020 Jul; 21(15):. PubMed ID: 32707824
[TBL] [Abstract][Full Text] [Related]
15. Evaluation of the binding performance of flavonoids to estrogen receptor alpha by Autodock, Autodock Vina and Surflex-Dock.
Xue Q; Liu X; Russell P; Li J; Pan W; Fu J; Zhang A
Ecotoxicol Environ Saf; 2022 Mar; 233():113323. PubMed ID: 35183811
[TBL] [Abstract][Full Text] [Related]
16. Efficient conformational sampling and weak scoring in docking programs? Strategy of the wisdom of crowds.
Chaput L; Mouawad L
J Cheminform; 2017 Jun; 9(1):37. PubMed ID: 29086077
[TBL] [Abstract][Full Text] [Related]
17. Extensive benchmark of rDock as a peptide-protein docking tool.
Soler D; Westermaier Y; Soliva R
J Comput Aided Mol Des; 2019 Jul; 33(7):613-626. PubMed ID: 31270654
[TBL] [Abstract][Full Text] [Related]
18. GalaxyDock2-HEME: Protein-ligand docking for heme proteins.
Lee C; Yang J; Kwon S; Seok C
J Comput Chem; 2023 May; 44(14):1369-1380. PubMed ID: 36809651
[TBL] [Abstract][Full Text] [Related]
19. Compromise in Docking Power of Liganded Crystal Structures of M
Zajaček D; Dunárová A; Bucinsky L; Štekláč M
J Chem Inf Model; 2024 Mar; 64(5):1628-1643. PubMed ID: 38408033
[TBL] [Abstract][Full Text] [Related]
20. Docking and scoring for nucleic acid-ligand interactions: Principles and current status.
Feng Y; Yan Y; He J; Tao H; Wu Q; Huang SY
Drug Discov Today; 2022 Mar; 27(3):838-847. PubMed ID: 34718205
[TBL] [Abstract][Full Text] [Related]
[Next] [New Search]
