Seffernick J - Search Results

1

Leveraging enzyme structure-function relationships for functional inference and experimental design: the structure-function linkage database.

Pegg SC, Brown SD, Ojha S, Seffernick J, Meng EC, Morris JH, Chang PJ, Huang CC, Ferrin TE, Babbitt PC. Pegg SC, et al. Among authors: seffernick j. Biochemistry. 2006 Feb 28;45(8):2545-55. doi: 10.1021/bi052101l. Biochemistry. 2006. PMID: 16489747

2

Target selection and annotation for the structural genomics of the amidohydrolase and enolase superfamilies.

Pieper U, Chiang R, Seffernick JJ, Brown SD, Glasner ME, Kelly L, Eswar N, Sauder JM, Bonanno JB, Swaminathan S, Burley SK, Zheng X, Chance MR, Almo SC, Gerlt JA, Raushel FM, Jacobson MP, Babbitt PC, Sali A. Pieper U, et al. Among authors: seffernick jj. J Struct Funct Genomics. 2009 Apr;10(2):107-25. doi: 10.1007/s10969-008-9056-5. Epub 2009 Feb 14. J Struct Funct Genomics. 2009. PMID: 19219566 Free PMC article.

3

Development of Novel Bacterial Topoisomerase Inhibitors Assisted by Computational Screening.

Powell JW, Mann CA, Toth PD, Nolan S, Steinert A, Ove C, Seffernick JT, Wozniak DJ, Kebriaei R, Lindert S, Osheroff N, Yalowich JC, Mitton-Fry MJ. Powell JW, et al. Among authors: seffernick jt. ACS Med Chem Lett. 2024 Jul 15;15(8):1287-1297. doi: 10.1021/acsmedchemlett.4c00162. eCollection 2024 Aug 8. ACS Med Chem Lett. 2024. PMID: 39140037 Free PMC article.

4

Predicting ion mobility collision cross sections using projection approximation with ROSIE-PARCS webserver.

Turzo SMBA, Seffernick JT, Lyskov S, Lindert S. Turzo SMBA, et al. Among authors: seffernick jt. Brief Bioinform. 2023 Sep 20;24(5):bbad308. doi: 10.1093/bib/bbad308. Brief Bioinform. 2023. PMID: 37609950 Free PMC article.

5

Protein complex prediction using Rosetta, AlphaFold, and mass spectrometry covalent labeling.

Drake ZC, Seffernick JT, Lindert S. Drake ZC, et al. Among authors: seffernick jt. Nat Commun. 2022 Dec 21;13(1):7846. doi: 10.1038/s41467-022-35593-8. Nat Commun. 2022. PMID: 36543826 Free PMC article.

6

Prediction of Intrinsic Disorder Using Rosetta ResidueDisorder and AlphaFold2.

He J, Turzo SBA, Seffernick JT, Kim SS, Lindert S. He J, et al. Among authors: seffernick jt. J Phys Chem B. 2022 Oct 27;126(42):8439-8446. doi: 10.1021/acs.jpcb.2c05508. Epub 2022 Oct 17. J Phys Chem B. 2022. PMID: 36251522

7

Protein shape sampled by ion mobility mass spectrometry consistently improves protein structure prediction.

Turzo SMBA, Seffernick JT, Rolland AD, Donor MT, Heinze S, Prell JS, Wysocki VH, Lindert S. Turzo SMBA, et al. Among authors: seffernick jt. Nat Commun. 2022 Jul 28;13(1):4377. doi: 10.1038/s41467-022-32075-9. Nat Commun. 2022. PMID: 35902583 Free PMC article.

8

Simulation of Energy-Resolved Mass Spectrometry Distributions from Surface-Induced Dissociation.

Seffernick JT, Turzo SBA, Harvey SR, Kim Y, Somogyi Á, Marciano S, Wysocki VH, Lindert S. Seffernick JT, et al. Anal Chem. 2022 Jul 26;94(29):10506-10514. doi: 10.1021/acs.analchem.2c01869. Epub 2022 Jul 14. Anal Chem. 2022. PMID: 35834801 Free PMC article.

9

Protein structure prediction using residue-resolved protection factors from hydrogen-deuterium exchange NMR.

Nguyen TT, Marzolf DR, Seffernick JT, Heinze S, Lindert S. Nguyen TT, et al. Among authors: seffernick jt. Structure. 2022 Feb 3;30(2):313-320.e3. doi: 10.1016/j.str.2021.10.006. Epub 2021 Nov 4. Structure. 2022. PMID: 34739840 Free article.

10

Optimization of TopoIV Potency, ADMET Properties, and hERG Inhibition of 5-Amino-1,3-dioxane-Linked Novel Bacterial Topoisomerase Inhibitors: Identification of a Lead with In Vivo Efficacy against MRSA.

Lu Y, Vibhute S, Li L, Okumu A, Ratigan SC, Nolan S, Papa JL, Mann CA, English A, Chen A, Seffernick JT, Koci B, Duncan LR, Roth B, Cummings JE, Slayden RA, Lindert S, McElroy CA, Wozniak DJ, Yalowich J, Mitton-Fry MJ. Lu Y, et al. Among authors: seffernick jt. J Med Chem. 2021 Oct 28;64(20):15214-15249. doi: 10.1021/acs.jmedchem.1c01250. Epub 2021 Oct 6. J Med Chem. 2021. PMID: 34614347

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