203 related articles for article (PubMed ID: 31270654)
21. Benchmarking of different molecular docking methods for protein-peptide docking.
Agrawal P; Singh H; Srivastava HK; Singh S; Kishore G; Raghava GPS
BMC Bioinformatics; 2019 Feb; 19(Suppl 13):426. PubMed ID: 30717654
[TBL] [Abstract][Full Text] [Related]
22. A unified conformational selection and induced fit approach to protein-peptide docking.
Trellet M; Melquiond AS; Bonvin AM
PLoS One; 2013; 8(3):e58769. PubMed ID: 23516555
[TBL] [Abstract][Full Text] [Related]
23. Docking software performance in protein-glycosaminoglycan systems.
Uciechowska-Kaczmarzyk U; Chauvot de Beauchene I; Samsonov SA
J Mol Graph Model; 2019 Jul; 90():42-50. PubMed ID: 30959268
[TBL] [Abstract][Full Text] [Related]
24. Flexible docking of peptides to proteins using CABS-dock.
Kurcinski M; Badaczewska-Dawid A; Kolinski M; Kolinski A; Kmiecik S
Protein Sci; 2020 Jan; 29(1):211-222. PubMed ID: 31682301
[TBL] [Abstract][Full Text] [Related]
25. A protocol for CABS-dock protein-peptide docking driven by side-chain contact information.
Kurcinski M; Blaszczyk M; Ciemny MP; Kolinski A; Kmiecik S
Biomed Eng Online; 2017 Aug; 16(Suppl 1):73. PubMed ID: 28830545
[TBL] [Abstract][Full Text] [Related]
26. Rosetta FlexPepDock ab-initio: simultaneous folding, docking and refinement of peptides onto their receptors.
Raveh B; London N; Zimmerman L; Schueler-Furman O
PLoS One; 2011 Apr; 6(4):e18934. PubMed ID: 21572516
[TBL] [Abstract][Full Text] [Related]
27. FlexPepDock lessons from CAPRI peptide-protein rounds and suggested new criteria for assessment of model quality and utility.
Marcu O; Dodson EJ; Alam N; Sperber M; Kozakov D; Lensink MF; Schueler-Furman O
Proteins; 2017 Mar; 85(3):445-462. PubMed ID: 28002624
[TBL] [Abstract][Full Text] [Related]
28. PepPro: A Nonredundant Structure Data Set for Benchmarking Peptide-Protein Computational Docking.
Xu X; Zou X
J Comput Chem; 2020 Feb; 41(4):362-369. PubMed ID: 31793016
[TBL] [Abstract][Full Text] [Related]
29. Protein-small molecule docking with receptor flexibility in iMOLSDOCK.
Sam Paul D; Gautham N
J Comput Aided Mol Des; 2018 Sep; 32(9):889-900. PubMed ID: 30128925
[TBL] [Abstract][Full Text] [Related]
30. Application of the ATTRACT Coarse-Grained Docking and Atomistic Refinement for Predicting Peptide-Protein Interactions.
Schindler C; Zacharias M
Methods Mol Biol; 2017; 1561():49-68. PubMed ID: 28236233
[TBL] [Abstract][Full Text] [Related]
31. Comparative Evaluation of Covalent Docking Tools.
Scarpino A; Ferenczy GG; Keserű GM
J Chem Inf Model; 2018 Jul; 58(7):1441-1458. PubMed ID: 29890081
[TBL] [Abstract][Full Text] [Related]
32. ZDOCK and RDOCK performance in CAPRI rounds 3, 4, and 5.
Wiehe K; Pierce B; Mintseris J; Tong WW; Anderson R; Chen R; Weng Z
Proteins; 2005 Aug; 60(2):207-13. PubMed ID: 15981263
[TBL] [Abstract][Full Text] [Related]
33. GalaxyPepDock: a protein-peptide docking tool based on interaction similarity and energy optimization.
Lee H; Heo L; Lee MS; Seok C
Nucleic Acids Res; 2015 Jul; 43(W1):W431-5. PubMed ID: 25969449
[TBL] [Abstract][Full Text] [Related]
34. Docking of peptides to GPCRs using a combination of CABS-dock with FlexPepDock refinement.
Badaczewska-Dawid AE; Kmiecik S; Koliński M
Brief Bioinform; 2021 May; 22(3):. PubMed ID: 32520310
[TBL] [Abstract][Full Text] [Related]
35. In Silico Peptide Ligation: Iterative Residue Docking and Linking as a New Approach to Predict Protein-Peptide Interactions.
Diharce J; Cueto M; Beltramo M; Aucagne V; Bonnet P
Molecules; 2019 Apr; 24(7):. PubMed ID: 30959812
[TBL] [Abstract][Full Text] [Related]
36. DINC 2.0: A New Protein-Peptide Docking Webserver Using an Incremental Approach.
Antunes DA; Moll M; Devaurs D; Jackson KR; Lizée G; Kavraki LE
Cancer Res; 2017 Nov; 77(21):e55-e57. PubMed ID: 29092940
[TBL] [Abstract][Full Text] [Related]
37. 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]
38. High-resolution global peptide-protein docking using fragments-based PIPER-FlexPepDock.
Alam N; Goldstein O; Xia B; Porter KA; Kozakov D; Schueler-Furman O
PLoS Comput Biol; 2017 Dec; 13(12):e1005905. PubMed ID: 29281622
[TBL] [Abstract][Full Text] [Related]
39. Modeling of protein-peptide interactions using the CABS-dock web server for binding site search and flexible docking.
Blaszczyk M; Kurcinski M; Kouza M; Wieteska L; Debinski A; Kolinski A; Kmiecik S
Methods; 2016 Jan; 93():72-83. PubMed ID: 26165956
[TBL] [Abstract][Full Text] [Related]
40. The scoring bias in reverse docking and the score normalization strategy to improve success rate of target fishing.
Luo Q; Zhao L; Hu J; Jin H; Liu Z; Zhang L
PLoS One; 2017; 12(2):e0171433. PubMed ID: 28196116
[TBL] [Abstract][Full Text] [Related]
[Previous] [Next] [New Search]
