Porter LL - Search Results

1

AlphaFold predictions of fold-switched conformations are driven by structure memorization.

Chakravarty D, Schafer JW, Chen EA, Thole JF, Ronish LA, Lee M, Porter LL. Chakravarty D, et al. Among authors: porter ll. Nat Commun. 2024 Aug 24;15(1):7296. doi: 10.1038/s41467-024-51801-z. Nat Commun. 2024. PMID: 39181864 Free PMC article.

2

Distinguishing features of fold-switching proteins.

Chakravarty D, Schafer JW, Porter LL. Chakravarty D, et al. Among authors: porter ll. Protein Sci. 2023 Mar;32(3):e4596. doi: 10.1002/pro.4596. Protein Sci. 2023. PMID: 36782353 Free PMC article. Review.

3

Identification of a covert evolutionary pathway between two protein folds.

Chakravarty D, Sreenivasan S, Swint-Kruse L, Porter LL. Chakravarty D, et al. Among authors: porter ll. Nat Commun. 2023 Jun 1;14(1):3177. doi: 10.1038/s41467-023-38519-0. Nat Commun. 2023. PMID: 37264049 Free PMC article.

4

Evolutionary selection of proteins with two folds.

Schafer JW, Porter LL. Schafer JW, et al. Among authors: porter ll. Nat Commun. 2023 Sep 6;14(1):5478. doi: 10.1038/s41467-023-41237-2. Nat Commun. 2023. PMID: 37673981 Free PMC article.

5

AlphaFold2 fails to predict protein fold switching.

Chakravarty D, Porter LL. Chakravarty D, et al. Among authors: porter ll. Protein Sci. 2022 Jun;31(6):e4353. doi: 10.1002/pro.4353. Protein Sci. 2022. PMID: 35634782 Free PMC article.

6

Evolutionary selection of proteins with two folds.

Schafer JW, Porter LL. Schafer JW, et al. Among authors: porter ll. bioRxiv [Preprint]. 2023 Jan 20:2023.01.18.524637. doi: 10.1101/2023.01.18.524637. bioRxiv. 2023. Update in: Nat Commun. 2023 Sep 6;14(1):5478. doi: 10.1038/s41467-023-41237-2. PMID: 36789442 Free PMC article. Updated. Preprint.

7

SSDraw: software for generating comparative protein secondary structure diagrams.

Chen EA, Porter LL. Chen EA, et al. Among authors: porter ll. bioRxiv [Preprint]. 2023 Nov 10:2023.08.25.554905. doi: 10.1101/2023.08.25.554905. bioRxiv. 2023. Update in: Protein Sci. 2023 Dec;32(12):e4836. doi: 10.1002/pro.4836. PMID: 37786684 Free PMC article. Updated. Preprint.

8

ColabFold predicts alternative protein structures from single sequences, coevolution unnecessary for AF-cluster.

Porter LL, Chakravarty D, Schafer JW, Chen EA. Porter LL, et al. bioRxiv [Preprint]. 2023 Nov 25:2023.11.21.567977. doi: 10.1101/2023.11.21.567977. bioRxiv. 2023. PMID: 38076792 Free PMC article. Preprint.

9

Many dissimilar NusG protein domains switch between α-helix and β-sheet folds.

Porter LL, Kim AK, Rimal S, Looger LL, Majumdar A, Mensh BD, Starich MR, Strub MP. Porter LL, et al. Nat Commun. 2022 Jul 1;13(1):3802. doi: 10.1038/s41467-022-31532-9. Nat Commun. 2022. PMID: 35778397 Free PMC article.

10

Fluid protein fold space and its implications.

Porter LL. Porter LL. Bioessays. 2023 Sep;45(9):e2300057. doi: 10.1002/bies.202300057. Epub 2023 Jul 11. Bioessays. 2023. PMID: 37431685 Free PMC article.

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