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https://www.readbyqxmd.com/read/29035199/structure-based-nuclear-import-mechanism-of-histones-h3-and-h4-mediated-by-kap123
#1
Sojin An, Jungmin Yoon, Hanseong Kim, Ji-Joon Song, Uhn-Soo Cho
Kap123, a major karyopherin protein of budding yeast, recognizes the nuclear localization signals (NLSs) of cytoplasmic histones H3 and H4 and translocates them into the nucleus during DNA replication. Mechanistic questions include H3- and H4-NLS redundancy toward Kap123 and the role of the conserved diacetylation of cytoplasmic H4 (K5ac and K12ac) in Kap123-mediated histone nuclear translocation. Here, we report crystal structures of full-length Kluyveromyces lactis Kap123 alone and in complex with H3- and H4-NLSs...
October 16, 2017: ELife
https://www.readbyqxmd.com/read/28934510/caf-1-induced-oligomerization-of-histones-h3-h4-and-mutually-exclusive-interactions-with-asf1-guide-h3-h4-transitions-among-histone-chaperones-and-dna
#2
Wallace H Liu, Sarah C Roemer, Alex M Port, Mair E A Churchill
No abstract text is available yet for this article.
September 19, 2017: Nucleic Acids Research
https://www.readbyqxmd.com/read/28749957/delineation-of-the-role-of-chromatin-assembly-and-the-rtt101mms1-e3-ubiquitin-ligase-in-dna-damage-checkpoint-recovery-in-budding-yeast
#3
Li-Ting Diao, Chin-Chuan Chen, Briana Dennehey, Sangita Pal, Pingping Wang, Zie-Jie Shen, Angela Deem, Jessica K Tyler
The DNA damage checkpoint is activated in response to DNA double-strand breaks (DSBs). We had previously shown that chromatin assembly mediated by the histone chaperone Asf1 triggers inactivation of the DNA damage checkpoint in yeast after DSB repair, also called checkpoint recovery. Here we show that chromatin assembly factor 1 (CAF-1) also contributes to chromatin reassembly after DSB repair, explaining its role in checkpoint recovery. Towards understanding how chromatin assembly promotes checkpoint recovery, we find persistent presence of the damage sensors Ddc1 and Ddc2 after DSB repair in asf1 mutants...
2017: PloS One
https://www.readbyqxmd.com/read/28708136/differential-requirements-for-tousled-like-kinases-1-and-2-in-mammalian-development
#4
Sandra Segura-Bayona, Philip A Knobel, Helena González-Burón, Sameh A Youssef, Aida Peña-Blanco, Étienne Coyaud, Teresa López-Rovira, Katrin Rein, Lluís Palenzuela, Julien Colombelli, Stephen Forrow, Brian Raught, Anja Groth, Alain de Bruin, Travis H Stracker
The regulation of chromatin structure is critical for a wide range of essential cellular processes. The Tousled-like kinases, TLK1 and TLK2, regulate ASF1, a histone H3/H4 chaperone, and likely other substrates, and their activity has been implicated in transcription, DNA replication, DNA repair, RNA interference, cell cycle progression, viral latency, chromosome segregation and mitosis. However, little is known about the functions of TLK activity in vivo or the relative functions of the highly similar TLK1 and TLK2 in any cell type...
November 2017: Cell Death and Differentiation
https://www.readbyqxmd.com/read/28522692/mitotic-chromosome-assembly-despite-nucleosome-depletion-in-xenopus-egg-extracts
#5
Keishi Shintomi, Fukashi Inoue, Hiroshi Watanabe, Keita Ohsumi, Miho Ohsugi, Tatsuya Hirano
The nucleosome is the fundamental structural unit of eukaryotic chromatin. During mitosis, duplicated nucleosome fibers are organized into a pair of rod-shaped structures (chromatids) within a mitotic chromosome. However, it remains unclear whether nucleosome assembly is indeed an essential prerequisite for mitotic chromosome assembly. We combined mouse sperm nuclei and Xenopus cell-free egg extracts depleted of the histone chaperone Asf1 and found that chromatid-like structures could be assembled even in the near absence of nucleosomes...
June 23, 2017: Science
https://www.readbyqxmd.com/read/28520954/h2b-ubiquitylation-and-the-histone-chaperone-asf1-cooperatively-mediate-the-formation-and-maintenance-of-heterochromatin-silencing
#6
Meng-Ying Wu, Chia-Yeh Lin, Hsin-Yi Tseng, Fei-Man Hsu, Pao-Yang Chen, Cheng-Fu Kao
Heterochromatin is a heritable form of gene repression, with critical roles in development and cell identity. Understanding how chromatin factors results in such repression is a fundamental question. Chromatin is assembled and disassembled during transcription, replication and repair by anti-silencing function 1 (Asf1), a highly conserved histone chaperone. Transcription and DNA replication are also affected by histone modifications that modify nucleosome dynamics, such as H2B ubiquitylation (H2Bub). We report here that H2Bub and Asf1 cooperatively promote transcriptional silencing at yeast telomeres and mating loci...
August 21, 2017: Nucleic Acids Research
https://www.readbyqxmd.com/read/28381790/the-wd40-domain-of-hira-is-essential-for-ri-nucleosome-assembly-in-xenopus-egg-extracts
#7
Ruibin Zhu, Mari Iwabuchi, Keita Ohsumi
Histone chaperones are a group of histone-binding proteins that facilitate the assembly of nucleosomes, the fundamental structural units of chromatin in eukaryotes. In nucleosome assembly, deposition of a histone H3-H4 tetramer onto DNA is the first and critical step, which is mediated by the histone chaperones HIRA and CAF-1. HIRA and CAF-1 are reportedly involved in DNA replication independent (RI) and replication coupled nucleosome assembly, respectively. However, the mechanisms by which they mediate histone deposition remain unclear...
2017: Cell Structure and Function
https://www.readbyqxmd.com/read/28320872/the-drosophila-daxx-like-protein-dlp-cooperates-with-asf1-for-h3-3-deposition-and-heterochromatin-formation
#8
Catherine Fromental-Ramain, Philippe Ramain, Ali Hamiche
Histone variants are nonallelic isoforms of canonical histones, and they are deposited, in contrast to canonical histones, in a replication-independent (RI) manner. RI deposition of H3.3, a histone variant from the H3.3 family, is mediated in mammals by distinct pathways involving either the histone regulator A (HIRA) complex or the death-associated protein (DAXX)/α-thalassemia X-linked mental retardation protein (ATRX) complex. Here, we investigated the function of the Drosophila DAXX-like protein (DLP) by using both fly genetic approaches and protein biochemistry...
June 15, 2017: Molecular and Cellular Biology
https://www.readbyqxmd.com/read/28123037/snasp-and-asf1a-function-through-both-competitive-and-compatible-modes-of-histone-binding
#9
Andrew Bowman, Akiko Koide, Jay S Goodman, Meaghan E Colling, Daria Zinne, Shohei Koide, Andreas G Ladurner
Histone chaperones are proteins that interact with histones to regulate the thermodynamic process of nucleosome assembly. sNASP and ASF1 are conserved histone chaperones that interact with histones H3 and H4 and are found in a multi-chaperoning complex in vivo Previously we identified a short peptide motif within H3 that binds to the TPR domain of sNASP with nanomolar affinity. Interestingly, this peptide motif is sequestered within the known ASF1-H3-H4 interface, raising the question of how these two proteins are found in complex together with histones when they share the same binding site...
January 25, 2017: Nucleic Acids Research
https://www.readbyqxmd.com/read/27753532/histone-chaperone-asf1b-promotes-human-%C3%AE-cell-proliferation-via-recruitment-of-histone-h3-3
#10
Pradyut K Paul, Mary E Rabaglia, Chen-Yu Wang, Donald S Stapleton, Ning Leng, Christina Kendziorski, Peter W Lewis, Mark P Keller, Alan D Attie
Anti-silencing function 1 (ASF1) is a histone H3-H4 chaperone involved in DNA replication and repair, and transcriptional regulation. Here, we identify ASF1B, the mammalian paralog to ASF1, as a proliferation-inducing histone chaperone in human β-cells. Overexpression of ASF1B led to distinct transcriptional signatures consistent with increased cellular proliferation and reduced cellular death. Using multiple methods of monitoring proliferation and mitotic progression, we show that overexpression of ASF1B is sufficient to induce human β-cell proliferation...
December 2016: Cell Cycle
https://www.readbyqxmd.com/read/27669733/mechanisms-underlying-acrolein-mediated-inhibition-of-chromatin-assembly
#11
Lei Fang, Danqi Chen, Clinton Yu, Hongjie Li, Jason Brocato, Lan Huang, Chunyuan Jin
Acrolein is a major component of cigarette smoke and cooking fumes. Previously, we reported that acrolein compromises chromatin assembly; however, underlying mechanisms have not been defined. Here, we report that acrolein reacts with lysine residues, including lysines 5 and 12, sites important for chromatin assembly, on histone H4 in vitro and in vivo Acrolein-modified histones are resistant to acetylation, suggesting that the reduced H4K12 acetylation that occurs following acrolein exposure is probably due to the formation of acrolein-histone lysine adducts...
December 1, 2016: Molecular and Cellular Biology
https://www.readbyqxmd.com/read/27645054/rrm3-regulates-epigenetic-conversions-in-saccharomyces-cerevisiae-in-conjunction-with-chromatin-assembly-factor-i
#12
Brandon Wyse, Roxanne Oshidari, Hollie Rowlands, Sanna Abbasi, Krassimir Yankulov
Chromatin structures are transmitted to daughter cells through a complex system of nucleosome disassembly and re-assembly at the advancing replication forks. However, the role of replication pausing in the transmission and perturbation of chromatin structures has not been addressed. RRM3 encodes a DNA helicase, which facilitates replication at sites covered with non-histone protein complexes (tRNA genes, active gene promoters, telomeres) in Saccharomyces cerevisiae. In this report we show that the deletion of RRM3 reduces the frequency of epigenetic conversions in the subtelomeric regions of the chromosomes...
July 3, 2016: Nucleus
https://www.readbyqxmd.com/read/27334407/a-polar-ring-endows-improved-specificity-to-an-antibody-fragment
#13
Zachary P Schaefer, Lucas J Bailey, Anthony A Kossiakoff
Engineering monovalent Fab fragments into bivalent formats like IgGs or F(ab')2 can lead to aggregation presumably because of nonspecific off-target interactions that induce aggregation. In an effort to further understand the molecular determinants of nonspecific interactions for engineered antibodies and natively folded proteins in general, we focused on a synthetic Fab with low nanomolar affinity to histone chaperone Anti-silencing factor 1 (Asf1) that demonstrates off-target binding through low solubility (∼5 mg/mL) in the multivalent F(ab') 2 state...
July 2016: Protein Science: a Publication of the Protein Society
https://www.readbyqxmd.com/read/27222517/asf1-facilitates-dephosphorylation-of-rad53-after-dna-double-strand-break-repair
#14
Michael Tsabar, David P Waterman, Fiona Aguilar, Lizabeth Katsnelson, Vinay V Eapen, Gonen Memisoglu, James E Haber
To allow for sufficient time to repair DNA double-stranded breaks (DSBs), eukaryotic cells activate the DNA damage checkpoint. In budding yeast, Rad53 (mammalian Chk2) phosphorylation parallels the persistence of the unrepaired DSB and is extinguished when repair is complete in a process termed recovery or when the cells adapt to the DNA damage checkpoint. A strain containing a slowly repaired DSB does not require the histone chaperone Asf1 to resume cell cycle progression after DSB repair. When a second, rapidly repairable DSB is added to this strain, Asf1 becomes required for recovery...
May 15, 2016: Genes & Development
https://www.readbyqxmd.com/read/27036862/the-histone-chaperone-vps75-forms-multiple-oligomeric-assemblies-capable-of-mediating-exchange-between-histone-h3-h4-tetramers-and-asf1-h3-h4-complexes
#15
Colin M Hammond, Ramasubramanian Sundaramoorthy, Mark Larance, Angus Lamond, Michael A Stevens, Hassane El-Mkami, David G Norman, Tom Owen-Hughes
Vps75 is a histone chaperone that has been historically characterized as homodimer by X-ray crystallography. In this study, we present a crystal structure containing two related tetrameric forms of Vps75 within the crystal lattice. We show Vps75 associates with histones in multiple oligomers. In the presence of equimolar H3-H4 and Vps75, the major species is a reconfigured Vps75 tetramer bound to a histone H3-H4 tetramer. However, in the presence of excess histones, a Vps75 dimer bound to a histone H3-H4 tetramer predominates...
July 27, 2016: Nucleic Acids Research
https://www.readbyqxmd.com/read/26941319/expression-homeostasis-during-dna-replication
#16
Yoav Voichek, Raz Bar-Ziv, Naama Barkai
Genome replication introduces a stepwise increase in the DNA template available for transcription. Genes replicated early in S phase experience this increase before late-replicating genes, raising the question of how expression levels are affected by DNA replication. We show that in budding yeast, messenger RNA (mRNA) synthesis rate is buffered against changes in gene dosage during S phase. This expression homeostasis depends on acetylation of H3 on its internal K56 site by Rtt109/Asf1. Deleting these factors, mutating H3K56 or up-regulating its deacetylation, increases gene expression in S phase in proportion to gene replication timing...
March 4, 2016: Science
https://www.readbyqxmd.com/read/26850882/loss-of-the-histone-chaperone-asf1b-reduces-female-reproductive-capacity-in-mice
#17
S Messiaen, J Guiard, C Aigueperse, I Fliniaux, S Tourpin, V Barroca, I Allemand, P Fouchet, G Livera, M Vernet
Anti-silencing function 1 (ASF1) is an evolutionarily conserved histone H3-H4 chaperone involved in the assembly/disassembly of nucleosome and histone modification. Two paralogous genes, Asf1a and Asf1b, exist in the mouse genome. Asf1a is ubiquitously expressed and its loss causes embryonic lethality. Conversely, Asf1b expression is more restricted and has been less studied. To determine the in vivo function of Asf1b, we generated a Asf1b-deficient mouse line (Asf1b(GT(ROSA-βgeo)437)) in which expression of the lacZ reporter gene is driven by the Asf1b promoter...
May 2016: Reproduction: the Official Journal of the Society for the Study of Fertility
https://www.readbyqxmd.com/read/26602697/genome-wide-cooperation-by-hat-gcn5-remodeler-swi-snf-and-chaperone-ydj1-in-promoter-nucleosome-eviction-and-transcriptional-activation
#18
Hongfang Qiu, Răzvan V Chereji, Cuihua Hu, Hope A Cole, Yashpal Rawal, David J Clark, Alan G Hinnebusch
Chaperones, nucleosome remodeling complexes, and histone acetyltransferases have been implicated in nucleosome disassembly at promoters of particular yeast genes, but whether these cofactors function ubiquitously, as well as the impact of nucleosome eviction on transcription genome-wide, is poorly understood. We used chromatin immunoprecipitation of histone H3 and RNA polymerase II (Pol II) in mutants lacking single or multiple cofactors to address these issues for about 200 genes belonging to the Gcn4 transcriptome, of which about 70 exhibit marked reductions in H3 promoter occupancy on induction by amino acid starvation...
February 2016: Genome Research
https://www.readbyqxmd.com/read/26602446/expression-of-non-acetylatable-lysines-10-and-14-of-histone-h4-impairs-transcription-and-replication-in-trypanosoma-cruzi
#19
Thiago Cesar Prata Ramos, Vinicius Santana Nunes, Sheila Cristina Nardelli, Bruno dos Santos Pascoalino, Nilmar Silvio Moretti, Antonio Augusto Rocha, Leonardo da Silva Augusto, Sergio Schenkman
The histone H4 from Trypanosomatids diverged from other eukaryotes in the N-terminus, a region that undergoes post-translation modifications involved in the control of gene expression, DNA replication, and chromatin assembly. Nonetheless, the N-terminus of Trypanosoma cruzi histone H4 is mainly acetylated at lysine 4. The lysines 10 and 14 are also acetylated, although at less extent, increasing during the S-phase or after DNA damage, which suggests a regulatory function. Here, we investigated the roles of these acetylations by expressing non-acetylated forms of histone H4 in T...
November 2015: Molecular and Biochemical Parasitology
https://www.readbyqxmd.com/read/26527279/analysis-of-the-histone-h3-1-interactome-a-suitable-chaperone-for-the-right-event
#20
Eric I Campos, Arne H Smits, Young-Hoon Kang, Sébastien Landry, Thelma M Escobar, Shruti Nayak, Beatrix M Ueberheide, Daniel Durocher, Michiel Vermeulen, Jerard Hurwitz, Danny Reinberg
Despite minimal disparity at the sequence level, mammalian H3 variants bind to distinct sets of polypeptides. Although histone H3.1 predominates in cycling cells, our knowledge of the soluble complexes that it forms en route to deposition or following eviction from chromatin remains limited. Here, we provide a comprehensive analysis of the H3.1-binding proteome, with emphasis on its interactions with histone chaperones and components of the replication fork. Quantitative mass spectrometry revealed 170 protein interactions, whereas a large-scale biochemical fractionation of H3...
November 19, 2015: Molecular Cell
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