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Select item 108724771.

Protein interaction network revealed by quantitative proteomic analysis links TFIIB to multiple aspects of the transcription cycle

Michael J. O’Brien, Athar Ansari

Biochim Biophys Acta Proteins Proteom. Author manuscript; available in PMC 2024 Feb 16.

Published in final edited form as: Biochim Biophys Acta Proteins Proteom. 2024 Jan 1; 1872(1): 140968. Published online 2023 Oct 19. doi: 10.1016/j.bbapap.2023.140968

PMCID:: PMC10872477

Abstract Article PDF–1.7M

Select item 107988582.

Fast-evolving cofactors regulate the role of HEATR5 complexes in intra-Golgi trafficking

Lucas J. Marmorale, Huan Jin, Thomas G. Reidy, Brandon Palomino-Alonso, Christopher J. Zysnarski, Fatima Jordan-Javed, Sagar Lahiri, Mara C. Duncan

J Cell Biol. 2024 Mar 4; 223(3): e202309047. Published online 2024 Jan 19. doi: 10.1083/jcb.202309047

PMCID:: PMC10798858

Abstract Article PDF–6.4M

Select item 107001383.

The social and structural architecture of the yeast protein interactome

André C. Michaelis, Andreas-David Brunner, Maximilian Zwiebel, Florian Meier, Maximilian T. Strauss, Isabell Bludau, Matthias Mann

Nature. 2023; 624(7990): 192–200. Published online 2023 Nov 15. doi: 10.1038/s41586-023-06739-5

PMCID:: PMC10700138

Abstract Article PDF–20M

Select item 106812594.

eIF2A represses cell wall biogenesis gene expression in Saccharomyces cerevisiae

Laura Meyer, Baptiste Courtin, Maïté Gomard, Abdelkader Namane, Emmanuelle Permal, Gwenael Badis, Alain Jacquier, Micheline Fromont-Racine

PLoS One. 2023; 18(11): e0293228. Published online 2023 Nov 27. doi: 10.1371/journal.pone.0293228

PMCID:: PMC10681259

Abstract Article PDF–2.5M

Select item 106390735.

A sensor complements the steric gate when DNA polymerase ϵ discriminates ribonucleotides

Vimal Parkash, Yashraj Kulkarni, Göran O Bylund, Pia Osterman, Shina Caroline Lynn Kamerlin, Erik Johansson

Nucleic Acids Res. 2023 Nov 10; 51(20): 11225–11238. Published online 2023 Oct 11. doi: 10.1093/nar/gkad817

PMCID:: PMC10639073

Abstract Article PDF–1.9M

Select item 105115616.

Synergism between CMG helicase and leading strand DNA polymerase at replication fork

Zhichun Xu, Jianrong Feng, Daqi Yu, Yunjing Huo, Xiaohui Ma, Wai Hei Lam, Zheng Liu, Xiang David Li, Toyotaka Ishibashi, Shangyu Dang, Yuanliang Zhai

Nat Commun. 2023; 14: 5849. Published online 2023 Sep 20. doi: 10.1038/s41467-023-41506-0

PMCID:: PMC10511561

Abstract Article PDF–5.3M

Select item 103718457.

DNA polymerase ε leading strand signature mutations result from defects in its proofreading activity

Robert E. Johnson, Louise Prakash, Satya Prakash

J Biol Chem. 2023 Jul; 299(7): 104913. Published online 2023 Jun 10. doi: 10.1016/j.jbc.2023.104913

PMCID:: PMC10371845

Abstract Article PDF–578K

Select item 100694478.

The evolving tale of Pol2 function

Matthew Gallitto, Zhiguo Zhang

Genes Dev. 2023 Feb 1; 37(3-4): 72–73. doi: 10.1101/gad.350527.123

PMCID:: PMC10069447

Abstract Article PDF–44K

Select item 99845329.

Genetic requirements for repair of lesions caused by single genomic ribonucleotides in S phase

Natalie Schindler, Matthias Tonn, Vanessa Kellner, Jia Jun Fung, Arianna Lockhart, Olga Vydzhak, Thomas Juretschke, Stefanie Möckel, Petra Beli, Anton Khmelinskii, Brian Luke

Nat Commun. 2023; 14: 1227. Published online 2023 Mar 3. doi: 10.1038/s41467-023-36866-6

PMCID:: PMC9984532

Abstract Article PDF–3.0M

Select item 982518710.

Pif1 family helicases promote mutation avoidance during DNA replication

Zhi-Xiong Zhou, Cindy Follonier, Scott A Lujan, Adam B Burkholder, Virginia A Zakian, Thomas A Kunkel

Nucleic Acids Res. 2022 Dec 9; 50(22): 12844–12855. Published online 2022 Dec 19. doi: 10.1093/nar/gkac1127

Correction in:: Nucleic Acids Res. 2023 Jun 23; 51(11): 5896.

PMCID:: PMC9825187

Abstract Article PDF–3.0M

Select item 963098611.

A balancing act: interactions within NuA4/TIP60 regulate picNuA4 function in Saccharomyces cerevisiae and humans

Phoebe Y T Lu, Alyssa C Kirlin, Maria J Aristizabal, Hilary T Brewis, Nancy Lévesque, Dheva T Setiaputra, Nikita Avvakumov, Joris J Benschop, Marian Groot Koerkamp, Frank C P Holstege, Nevan J Krogan, Calvin K Yip, Jacques Côté, Michael S Kobor

Genetics. 2022 Nov; 222(3): iyac136. Published online 2022 Sep 6. doi: 10.1093/genetics/iyac136

PMCID:: PMC9630986

Abstract Article PDF–2.2M

Select item 937191112.

Enhanced polymerase activity permits efficient synthesis by cancer-associated DNA polymerase ϵ variants at low dNTP levels

Stephanie R Barbari, Annette K Beach, Joel G Markgren, Vimal Parkash, Elizabeth A Moore, Erik Johansson, Polina V Shcherbakova

Nucleic Acids Res. 2022 Aug 12; 50(14): 8023–8040. Published online 2022 Jul 13. doi: 10.1093/nar/gkac602

PMCID:: PMC9371911

Abstract Article PDF–4.0M

Select item 928602313.

Mediator recruits the cohesin loader Scc2 to RNA Pol II-transcribed genes and promotes sister chromatid cohesion

Mark Mattingly, Chris Seidel, Sofía Muñoz, Yan Hao, Ying Zhang, Zhihui Wen, Laurence Florens, Frank Uhlmann, Jennifer L. Gerton

Curr Biol. 2022 Jul 11; 32(13): 2884–2896.e6. doi: 10.1016/j.cub.2022.05.019

PMCID:: PMC9286023

Abstract Article

Select item 920981114.

New data and collaborations at the Saccharomyces Genome Database: updated reference genome, alleles, and the Alliance of Genome Resources

Stacia R Engel, Edith D Wong, Robert S Nash, Suzi Aleksander, Micheal Alexander, Eric Douglass, Kalpana Karra, Stuart R Miyasato, Matt Simison, Marek S Skrzypek, Shuai Weng, J Michael Cherry

Genetics. 2022 Apr; 220(4): iyab224. Published online 2021 Dec 13. doi: 10.1093/genetics/iyab224

PMCID:: PMC9209811

Abstract Article PDF–818K

Select item 857106315.

Systems-level effects of allosteric perturbations to a model molecular switch

Tina Perica, Christopher J. P. Mathy, Jiewei Xu, Gwendolyn M. Jang, Yang Zhang, Robyn Kaake, Noah Ollikainen, Hannes Braberg, Danielle L. Swaney, David G. Lambright, Mark J. S. Kelly, Nevan J. Krogan, Tanja Kortemme

Nature. Author manuscript; available in PMC 2022 May 1.

Published in final edited form as: Nature. 2021 Nov; 599(7883): 152–157. Published online 2021 Oct 13. doi: 10.1038/s41586-021-03982-6

PMCID:: PMC8571063

Abstract Article PDF–2.7M

Select item 851195016.

The histone chaperone Spt6 is required for normal recruitment of the capping enzyme Abd1 to transcribed regions

Rajaraman Gopalakrishnan, Fred Winston

J Biol Chem. 2021 Oct; 297(4): 101205. Published online 2021 Sep 17. doi: 10.1016/j.jbc.2021.101205

PMCID:: PMC8511950

Abstract Article PDF–3.1M

Select item 849902317.

The [4Fe4S] Cluster of Yeast DNA Polymerase ε Is Redox Active and Can Undergo DNA-Mediated Signaling

Miguel N. Pinto, Josy ter Beek, Levi A. Ekanger, Erik Johansson, Jacqueline K. Barton

J Am Chem Soc. 2021 Oct 6; 143(39): 16147–16153. Published online 2021 Sep 24. doi: 10.1021/jacs.1c07150

PMCID:: PMC8499023

Abstract Article PDF–1.6M

Select item 822535218.

Compensation for the absence of the catalytically active half of DNA polymerase ε in yeast by positively selected mutations in CDC28

Elena I Stepchenkova, Anna S Zhuk, Jian Cui, Elena R Tarakhovskaya, Stephanie R Barbari, Polina V Shcherbakova, Dmitrii E Polev, Roman Fedorov, Eugenia Poliakov, Igor B Rogozin, Artem G Lada, Youri I Pavlov

Genetics. 2021 Jun; 218(2): iyab060. Published online 2021 Apr 12. doi: 10.1093/genetics/iyab060