233 related articles for article (PubMed ID: 35136054)
1. Protein sequence design with a learned potential.
Anand N; Eguchi R; Mathews II; Perez CP; Derry A; Altman RB; Huang PS
Nat Commun; 2022 Feb; 13(1):746. PubMed ID: 35136054
[TBL] [Abstract][Full Text] [Related]
2. Diversifying de novo TIM barrels by hallucination.
Beck J; Shanmugaratnam S; Höcker B
Protein Sci; 2024 Jun; 33(6):e5001. PubMed ID: 38723111
[TBL] [Abstract][Full Text] [Related]
3. De novo design of a four-fold symmetric TIM-barrel protein with atomic-level accuracy.
Huang PS; Feldmeier K; Parmeggiani F; Velasco DAF; Höcker B; Baker D
Nat Chem Biol; 2016 Jan; 12(1):29-34. PubMed ID: 26595462
[TBL] [Abstract][Full Text] [Related]
4. Robust deep learning-based protein sequence design using ProteinMPNN.
Dauparas J; Anishchenko I; Bennett N; Bai H; Ragotte RJ; Milles LF; Wicky BIM; Courbet A; de Haas RJ; Bethel N; Leung PJY; Huddy TF; Pellock S; Tischer D; Chan F; Koepnick B; Nguyen H; Kang A; Sankaran B; Bera AK; King NP; Baker D
Science; 2022 Oct; 378(6615):49-56. PubMed ID: 36108050
[TBL] [Abstract][Full Text] [Related]
5. De novo protein design by inversion of the AlphaFold structure prediction network.
Goverde CA; Wolf B; Khakzad H; Rosset S; Correia BE
Protein Sci; 2023 Jun; 32(6):e4653. PubMed ID: 37165539
[TBL] [Abstract][Full Text] [Related]
6. Fast and Flexible Protein Design Using Deep Graph Neural Networks.
Strokach A; Becerra D; Corbi-Verge C; Perez-Riba A; Kim PM
Cell Syst; 2020 Oct; 11(4):402-411.e4. PubMed ID: 32971019
[TBL] [Abstract][Full Text] [Related]
7. A general computational approach for repeat protein design.
Parmeggiani F; Huang PS; Vorobiev S; Xiao R; Park K; Caprari S; Su M; Seetharaman J; Mao L; Janjua H; Montelione GT; Hunt J; Baker D
J Mol Biol; 2015 Jan; 427(2):563-75. PubMed ID: 25451037
[TBL] [Abstract][Full Text] [Related]
8. Computational design of high-affinity epitope scaffolds by backbone grafting of a linear epitope.
Azoitei ML; Ban YE; Julien JP; Bryson S; Schroeter A; Kalyuzhniy O; Porter JR; Adachi Y; Baker D; Pai EF; Schief WR
J Mol Biol; 2012 Jan; 415(1):175-92. PubMed ID: 22061265
[TBL] [Abstract][Full Text] [Related]
9. Validation of de novo designed water-soluble and transmembrane β-barrels by in silico folding and melting.
Hermosilla AM; Berner C; Ovchinnikov S; Vorobieva AA
Protein Sci; 2024 Jul; 33(7):e5033. PubMed ID: 38864690
[TBL] [Abstract][Full Text] [Related]
10. A conserved folding nucleus sculpts the free energy landscape of bacterial and archaeal orthologs from a divergent TIM barrel family.
Jain R; Muneeruddin K; Anderson J; Harms MJ; Shaffer SA; Matthews CR
Proc Natl Acad Sci U S A; 2021 Apr; 118(17):. PubMed ID: 33875592
[TBL] [Abstract][Full Text] [Related]
11. Synthetic beta-solenoid proteins with the fragment-free computational design of a beta-hairpin extension.
MacDonald JT; Kabasakal BV; Godding D; Kraatz S; Henderson L; Barber J; Freemont PS; Murray JW
Proc Natl Acad Sci U S A; 2016 Sep; 113(37):10346-51. PubMed ID: 27573845
[TBL] [Abstract][Full Text] [Related]
12. Precise assembly of complex beta sheet topologies from de novo designed building blocks.
King IC; Gleixner J; Doyle L; Kuzin A; Hunt JF; Xiao R; Montelione GT; Stoddard BL; DiMaio F; Baker D
Elife; 2015 Dec; 4():. PubMed ID: 26650357
[TBL] [Abstract][Full Text] [Related]
13. Fast, cheap and out of control--Insights into thermodynamic and informatic constraints on natural protein sequences from de novo protein design.
Brisendine JM; Koder RL
Biochim Biophys Acta; 2016 May; 1857(5):485-492. PubMed ID: 26498191
[TBL] [Abstract][Full Text] [Related]
14. Accurate computer-based design of a new backbone conformation in the second turn of protein L.
Kuhlman B; O'Neill JW; Kim DE; Zhang KY; Baker D
J Mol Biol; 2002 Jan; 315(3):471-7. PubMed ID: 11786026
[TBL] [Abstract][Full Text] [Related]
15. Mega-scale experimental analysis of protein folding stability in biology and design.
Tsuboyama K; Dauparas J; Chen J; Laine E; Mohseni Behbahani Y; Weinstein JJ; Mangan NM; Ovchinnikov S; Rocklin GJ
Nature; 2023 Aug; 620(7973):434-444. PubMed ID: 37468638
[TBL] [Abstract][Full Text] [Related]
16. De novo protein design: fully automated sequence selection.
Dahiyat BI; Mayo SL
Science; 1997 Oct; 278(5335):82-7. PubMed ID: 9311930
[TBL] [Abstract][Full Text] [Related]
17. De novo protein design by citizen scientists.
Koepnick B; Flatten J; Husain T; Ford A; Silva DA; Bick MJ; Bauer A; Liu G; Ishida Y; Boykov A; Estep RD; Kleinfelter S; Nørgård-Solano T; Wei L; Players F; Montelione GT; DiMaio F; Popović Z; Khatib F; Cooper S; Baker D
Nature; 2019 Jun; 570(7761):390-394. PubMed ID: 31168091
[TBL] [Abstract][Full Text] [Related]
18. Proteins of well-defined structures can be designed without backbone readjustment by a statistical model.
Zhou X; Xiong P; Wang M; Ma R; Zhang J; Chen Q; Liu H
J Struct Biol; 2016 Dec; 196(3):350-357. PubMed ID: 27522946
[TBL] [Abstract][Full Text] [Related]
19. Robust
Edgell CL; Savery NJ; Woolfson DN
Biochemistry; 2020 Mar; 59(10):1087-1092. PubMed ID: 32133841
[No Abstract] [Full Text] [Related]
20. Unified rational protein engineering with sequence-based deep representation learning.
Alley EC; Khimulya G; Biswas S; AlQuraishi M; Church GM
Nat Methods; 2019 Dec; 16(12):1315-1322. PubMed ID: 31636460
[TBL] [Abstract][Full Text] [Related]
[Next] [New Search]
