Works matching IS 03051048 AND DT 2021 AND VI 49 AND IP 4

Results: 45

Structural basis of diversity and homodimerization specificity of zinc-finger-associated domains in Drosophila.

Published in:

Nucleic Acids Research, 2021, v. 49, n. 4, p. 2375, doi. 10.1093/nar/gkab061

By:

Bonchuk, Artem;
Boyko, Konstantin;
Fedotova, Anna;
Nikolaeva, Alena;
Lushchekina, Sofya;
Khrustaleva, Anastasia;
Popov, Vladimir;
Georgiev, Pavel

Publication type:

Article

Structure-based analyses of Salmonella RcsB variants unravel new features of the Rcs regulon.

Published in:

Nucleic Acids Research, 2021, v. 49, n. 4, p. 2357, doi. 10.1093/nar/gkab060

By:

Huesa, Juanjo;
Giner-Lamia, Joaquín;
Pucciarelli, M Graciela;
Paredes-Martínez, Francisco;
Portillo, Francisco García-del;
Marina, Alberto;
Casino, Patricia

Publication type:

Article

Oxidative lesions modulate G-quadruplex stability and structure in the human BCL2 promoter.

Published in:

Nucleic Acids Research, 2021, v. 49, n. 4, p. 2346, doi. 10.1093/nar/gkab057

By:

Bielskutė, Stasė;
Plavec, Janez;
Podbevšek, Peter

Publication type:

Article

CK2 kinase-mediated PHF8 phosphorylation controls TopBP1 stability to regulate DNA replication.

Published in:

Nucleic Acids Research, 2021, v. 49, n. 4, p. 2400, doi. 10.1093/nar/gkab056

By:

Feng, Haihua;
Lu, Jingchen;
Song, Xiaotian;
Thongkum, Angkana;
Zhang, Fan;
Lou, Lihong;
Reizes, Ofer;
Almasan, Alexandru;
Gong, Zihua

Publication type:

Article

Small-molecule inhibitors of histone deacetylase improve CRISPR-based adenine base editing.

Published in:

Nucleic Acids Research, 2021, v. 49, n. 4, p. 2390, doi. 10.1093/nar/gkab052

By:

Shin, Ha Rim;
See, Ji-Eun;
Kweon, Jiyeon;
Kim, Heon Seok;
Sung, Gi-Jun;
Park, Sojung;
Jang, An-Hee;
Jang, Gayoung;
Choi, Kyung‐Chul;
Kim, Inki;
Kim, Jin-Soo;
Kim, Yongsub

Publication type:

Article

A unique arginine cluster in PolDIP2 enhances nucleotide binding and DNA synthesis by PrimPol.

Published in:

Nucleic Acids Research, 2021, v. 49, n. 4, p. 2179, doi. 10.1093/nar/gkab049

By:

Kasho, Kazutoshi;
Stojkovič, Gorazd;
Velázquez-Ruiz, Cristina;
Martínez-Jiménez, Maria Isabel;
Doimo, Mara;
Laurent, Timothée;
Berner, Andreas;
Pérez-Rivera, Aldo E;
Jenninger, Louise;
Blanco, Luis;
Wanrooij, Sjoerd

Publication type:

Article

Site-specific incorporation of 5′-methyl DNA enhances the therapeutic profile of gapmer ASOs.

Published in:

Nucleic Acids Research, 2021, v. 49, n. 4, p. 1828, doi. 10.1093/nar/gkab047

By:

Vasquez, Guillermo;
Freestone, Graeme C;
Wan, W Brad;
Low, Audrey;
De Hoyos, Cheryl Li;
Yu, Jinghua;
Prakash, Thazha P;
Ǿstergaard, Michael E;
Liang, Xue-hai;
Crooke, Stanley T;
Swayze, Eric E;
Migawa, Michael T;
Seth, Punit P

Publication type:

Article

A native, highly active Tc1/mariner transposon from zebrafish (ZB) offers an efficient genetic manipulation tool for vertebrates.

Published in:

Nucleic Acids Research, 2021, v. 49, n. 4, p. 2126, doi. 10.1093/nar/gkab045

By:

Shen, Dan;
Song, Chengyi;
Miskey, Csaba;
Chan, Shuheng;
Guan, Zhongxia;
Sang, Yatong;
Wang, Yali;
Chen, Cai;
Wang, Xiaoyan;
Müller, Ferenc;
Ivics, Zoltán;
Gao, Bo

Publication type:

Article

Mechanism of DNA cleavage by the endonuclease SauUSI: a major barrier to horizontal gene transfer and antibiotic resistance in Staphylococcus aureus.

Published in:

Nucleic Acids Research, 2021, v. 49, n. 4, p. 2161, doi. 10.1093/nar/gkab042

By:

Tumuluri, Vinayak Sadasivam;
Rajgor, Vrunda;
Xu, Shuang-Yong;
Chouhan, Om Prakash;
Saikrishnan, Kayarat

Publication type:

Article

Human Rev1 relies on insert-2 to promote selective binding and accurate replication of stabilized G-quadruplex motifs.

Published in:

Nucleic Acids Research, 2021, v. 49, n. 4, p. 2065, doi. 10.1093/nar/gkab041

By:

Ketkar, Amit;
Smith, Lane;
Johnson, Callie;
Richey, Alyssa;
Berry, Makayla;
Hartman, Jessica H;
Maddukuri, Leena;
Reed, Megan R;
Gunderson, Julie E C;
Leung, Justin W C;
Eoff, Robert L

Publication type:

Article

DNA G-quadruplexes for native mass spectrometry in potassium: a database of validated structures in electrospray-compatible conditions.

Published in:

Nucleic Acids Research, 2021, v. 49, n. 4, p. 2333, doi. 10.1093/nar/gkab039

By:

Ghosh, Anirban;
Largy, Eric;
Gabelica, Valérie

Publication type:

Article

Overlapping but distinct: a new model for G-quadruplex biochemical specificity.

Published in:

Nucleic Acids Research, 2021, v. 49, n. 4, p. 1816, doi. 10.1093/nar/gkab037

By:

Volek, Martin;
Kolesnikova, Sofia;
Svehlova, Katerina;
Srb, Pavel;
Sgallová, Ráchel;
Streckerová, Tereza;
Redondo, Juan A;
Veverka, Václav;
Curtis, Edward A

Publication type:

Article

BACH1 recruits NANOG and histone H3 lysine 4 methyltransferase MLL/SET1 complexes to regulate enhancer–promoter activity and maintains pluripotency.

Published in:

Nucleic Acids Research, 2021, v. 49, n. 4, p. 1972, doi. 10.1093/nar/gkab034

By:

Niu, Cong;
Wang, Siqing;
Guo, Jieyu;
Wei, Xiangxiang;
Jia, Mengping;
Chen, Zhaoxiong;
Gong, Wenxuan;
Qin, Yue;
Wang, Xinhong;
Zhi, Xiuling;
Lu, Meng;
Chen, Sifeng;
Gu, Mingxia;
Zhang, Jianyi;
Han, Jing-Dong J;
Lan, Fei;
Meng, Dan

Publication type:

Article

SUMOylation regulates the protein network and chromatin accessibility at glucocorticoid receptor-binding sites.

Published in:

Nucleic Acids Research, 2021, v. 49, n. 4, p. 1951, doi. 10.1093/nar/gkab032

By:

Paakinaho, Ville;
Lempiäinen, Joanna K;
Sigismondo, Gianluca;
Niskanen, Einari A;
Malinen, Marjo;
Jääskeläinen, Tiina;
Varjosalo, Markku;
Krijgsveld, Jeroen;
Palvimo, Jorma J

Publication type:

Article

PAUPAR and PAX6 sequentially regulate human embryonic stem cell cortical differentiation.

Published in:

Nucleic Acids Research, 2021, v. 49, n. 4, p. 1935, doi. 10.1093/nar/gkab030

By:

Xu, Yanxin;
Xi, Jiajie;
Wang, Guiying;
Guo, Zhenming;
Sun, Qiaoyi;
Lu, Chenqi;
Ma, Li;
Wu, Yukang;
Jia, Wenwen;
Zhu, Songcheng;
Guo, Xudong;
Bian, Shan;
Kang, Jiuhong

Publication type:

Article

Insight into formation propensity of pseudocircular DNA G-hairpins.

Published in:

Nucleic Acids Research, 2021, v. 49, n. 4, p. 2317, doi. 10.1093/nar/gkab029

By:

Živković, Martina Lenarčič;
Gajarský, Martin;
Beková, Kateřina;
Stadlbauer, Petr;
Vicherek, Lukáš;
Petrová, Magdalena;
Fiala, Radovan;
Rosenberg, Ivan;
Šponer, Jiří;
Plavec, Janez;
Trantírek, Lukáš

Publication type:

Article

NMR structural study on the self-trimerization of d(GTTAGG) into a dynamic trimolecular G-quadruplex assembly preferentially in Na+ solution with a moderate K+ tolerance.

Published in:

Nucleic Acids Research, 2021, v. 49, n. 4, p. 2306, doi. 10.1093/nar/gkab028

By:

Jing, Haitao;
Fu, Wenqiang;
Hu, Wenxuan;
Xu, Suping;
Xu, Xiaojuan;
He, Miao;
Liu, Yangzhong;
Zhang, Na

Publication type:

Article

Repression of a large number of genes requires interplay between homologous recombination and HIRA.

Published in:

Nucleic Acids Research, 2021, v. 49, n. 4, p. 1914, doi. 10.1093/nar/gkab027

By:

Misova, Ivana;
Pitelova, Alexandra;
Budis, Jaroslav;
Gazdarica, Juraj;
Sedlackova, Tatiana;
Jordakova, Anna;
Benko, Zsigmond;
Smondrkova, Maria;
Mayerova, Nina;
Pichlerova, Karoline;
Strieskova, Lucia;
Prevorovsky, Martin;
Gregan, Juraj;
Cipak, Lubos;
Szemes, Tomas;
Polakova, Silvia Bagelova

Publication type:

Article

Lamin B1 acetylation slows the G1 to S cell cycle transition through inhibition of DNA repair.

Published in:

Nucleic Acids Research, 2021, v. 49, n. 4, p. 2044, doi. 10.1093/nar/gkab019

By:

Murray-Nerger, Laura A;
Justice, Joshua L;
Rekapalli, Pranav;
Hutton, Josiah E;
Cristea, Ileana M

Publication type:

Article

Non-perfectly matching small RNAs can induce stable and heritable epigenetic modifications and can be used as molecular markers to trace the origin and fate of silencing RNAs.

Published in:

Nucleic Acids Research, 2021, v. 49, n. 4, p. 1900, doi. 10.1093/nar/gkab023

By:

Fei, Yue;
Nyikó, Tünde;
Molnar, Attila

Publication type:

Article

Hibernation factors directly block ribonucleases from entering the ribosome in response to starvation.

Published in:

Nucleic Acids Research, 2021, v. 49, n. 4, p. 2226, doi. 10.1093/nar/gkab017

By:

Prossliner, Thomas;
Gerdes, Kenn;
Sørensen, Michael Askvad;
Winther, Kristoffer Skovbo

Publication type:

Article

Dinucleotides as simple models of the base stacking-unstacking component of DNA 'breathing' mechanisms.

Published in:

Nucleic Acids Research, 2021, v. 49, n. 4, p. 1872, doi. 10.1093/nar/gkab015

By:

Beyerle, Eric R;
Dinpajooh, Mohammadhasan;
Ji, Huiying;
von Hippel, Peter H;
Marcus, Andrew H;
Guenza, Marina G

Publication type:

Article

Structure of a reaction intermediate mimic in t6A biosynthesis bound in the active site of the TsaBD heterodimer from Escherichia coli.

Published in:

Nucleic Acids Research, 2021, v. 49, n. 4, p. 2141, doi. 10.1093/nar/gkab026

By:

Kopina, Brett J;
Missoury, Sophia;
Collinet, Bruno;
Fulton, Mark G;
Cirio, Charles;
van Tilbeurgh, Herman;
Lauhon, Charles T

Publication type:

Article

The metabolite methylglyoxal-mediated gene expression is associated with histone methylglyoxalation.

Published in:

Nucleic Acids Research, 2021, v. 49, n. 4, p. 1886, doi. 10.1093/nar/gkab014

By:

Fu, Zheng-Wei;
Li, Jian-Hui;
Feng, Yu-Rui;
Yuan, Xiao;
Lu, Ying-Tang

Publication type:

Article

Targeted splice sequencing reveals RNA toxicity and therapeutic response in myotonic dystrophy.

Published in:

Nucleic Acids Research, 2021, v. 49, n. 4, p. 2240, doi. 10.1093/nar/gkab022

By:

Tanner, Matthew K;
Tang, Zhenzhi;
Thornton, Charles A

Publication type:

Article

In vitro selected GUAA tetraloop-binding receptors with structural plasticity and evolvability towards natural RNA structural modules.

Published in:

Nucleic Acids Research, 2021, v. 49, n. 4, p. 2289, doi. 10.1093/nar/gkab021

By:

Zakrevsky, Paul;
Calkins, Erin;
Kao, Yi-Ling;
Singh, Gurkeerat;
Keleshian, Vasken L;
Baudrey, Stephanie;
Jaeger, Luc

Publication type:

Article

Dynamics of the HD regulatory subdomain of PARP-1; substrate access and allostery in PARP activation and inhibition.

Published in:

Nucleic Acids Research, 2021, v. 49, n. 4, p. 2266, doi. 10.1093/nar/gkab020

By:

Ogden, Tom E H;
Yang, Ji-Chun;
Schimpl, Marianne;
Easton, Laura E;
Underwood, Elizabeth;
Rawlins, Philip B;
McCauley, Michael M;
Langelier, Marie-France;
Pascal, John M;
Embrey, Kevin J;
Neuhaus, David

Publication type:

Article

Human pathways in animal models: possibilities and limitations.

Published in:

Nucleic Acids Research, 2021, v. 49, n. 4, p. 1859, doi. 10.1093/nar/gkab012

By:

Doncheva, Nadezhda T;
Palasca, Oana;
Yarani, Reza;
Litman, Thomas;
Anthon, Christian;
Groenen, Martien A M;
Stadler, Peter F;
Pociot, Flemming;
Jensen, Lars J;
Gorodkin, Jan

Publication type:

Article

Anatomy of noncovalent interactions between the nucleobases or ribose and π-containing amino acids in RNA–protein complexes.

Published in:

Nucleic Acids Research, 2021, v. 49, n. 4, p. 2213, doi. 10.1093/nar/gkab008

By:

Wilson, Katie A;
Kung, Ryan W;
D'souza, Simmone;
Wetmore, Stacey D

Publication type:

Article

A heme•DNAzyme activated by hydrogen peroxide catalytically oxidizes thioethers by direct oxygen atom transfer rather than by a Compound I-like intermediate.

Published in:

Nucleic Acids Research, 2021, v. 49, n. 4, p. 1803, doi. 10.1093/nar/gkab007

By:

Shumayrikh, Nisreen M;
Warren, Jeffrey J;
Bennet, Andrew J;
Sen, Dipankar

Publication type:

Article

Mobile element warfare via CRISPR and anti-CRISPR in Pseudomonas aeruginosa.

Published in:

Nucleic Acids Research, 2021, v. 49, n. 4, p. 2114, doi. 10.1093/nar/gkab006

By:

León, Lina M;
Park, Allyson E;
Borges, Adair L;
Zhang, Jenny Y;
Bondy-Denomy, Joseph

Publication type:

Article

The nascent polypeptide in the 60S subunit determines the Rqc2-dependency of ribosomal quality control.

Published in:

Nucleic Acids Research, 2021, v. 49, n. 4, p. 2102, doi. 10.1093/nar/gkab005

By:

Mizuno, Masato;
Ebine, Shuhei;
Shounai, Okuto;
Nakajima, Shizuka;
Tomomatsu, Shota;
Ikeuchi, Ken;
Matsuo, Yoshitaka;
Inada, Toshifumi

Publication type:

Article

Prpf31 is essential for the survival and differentiation of retinal progenitor cells by modulating alternative splicing.

Published in:

Nucleic Acids Research, 2021, v. 49, n. 4, p. 2027, doi. 10.1093/nar/gkab003

By:

Li, Jingzhen;
Liu, Fei;
Lv, Yuexia;
Sun, Kui;
Zhao, Yuntong;
Reilly, Jamas;
Zhang, Yangjun;
Tu, Jiayi;
Yu, Shanshan;
Liu, Xiliang;
Qin, Yayun;
Huang, Yuwen;
Gao, Pan;
Jia, Danna;
Chen, Xiang;
Han, Yunqiao;
Shu, Xinhua;
Luo, Daji;
Tang, Zhaohui;
Liu, Mugen

Publication type:

Article

CoBold: a method for identifying different functional classes of transient RNA structure features that can impact RNA structure formation in vivo.

Published in:

Nucleic Acids Research, 2021, v. 49, n. 4, p. e19, doi. 10.1093/nar/gkaa900

By:

Martín, Adrián López;
Mounir, Mohamed;
Meyer, Irmtraud M

Publication type:

Article

RPA complexes in Caenorhabditis elegans meiosis; unique roles in replication, meiotic recombination and apoptosis.

Published in:

Nucleic Acids Research, 2021, v. 49, n. 4, p. 2005, doi. 10.1093/nar/gkaa1293

By:

Hefel, Adam;
Honda, Masayoshi;
Cronin, Nicholas;
Harrell, Kailey;
Patel, Pooja;
Spies, Maria;
Smolikove, Sarit

Publication type:

Article

MazF toxin causes alterations in Staphylococcus aureus transcriptome, translatome and proteome that underlie bacterial dormancy.

Published in:

Nucleic Acids Research, 2021, v. 49, n. 4, p. 2085, doi. 10.1093/nar/gkaa1292

By:

Bezrukov, Fedor;
Prados, Julien;
Renzoni, Adriana;
Panasenko, Olesya O

Publication type:

Article

Allosteric effects of SSB C-terminal tail on assembly of E. coli RecOR proteins.

Published in:

Nucleic Acids Research, 2021, v. 49, n. 4, p. 1987, doi. 10.1093/nar/gkaa1291

By:

Shinn, Min Kyung;
Kozlov, Alexander G;
Lohman, Timothy M

Publication type:

Article

Structural determinants of the IRF4/DNA homodimeric complex.

Published in:

Nucleic Acids Research, 2021, v. 49, n. 4, p. 2255, doi. 10.1093/nar/gkaa1287

By:

Sundararaj, Srinivasan;
Seneviratne, Sandali;
Williams, Simon J;
Enders, Anselm;
Casarotto, Marco G

Publication type:

Article

Another layer of complexity in Staphylococcus aureus methionine biosynthesis control: unusual RNase III-driven T-box riboswitch cleavage determines met operon mRNA stability and decay.

Published in:

Nucleic Acids Research, 2021, v. 49, n. 4, p. 2192, doi. 10.1093/nar/gkaa1277

By:

Wencker, Freya D R;
Marincola, Gabriella;
Schoenfelder, Sonja M K;
Maaß, Sandra;
Becher, Dörte;
Ziebuhr, Wilma

Publication type:

Article

Polymer modelling unveils the roles of heterochromatin and nucleolar organizing regions in shaping 3D genome organization in Arabidopsis thaliana.

Published in:

Nucleic Acids Research, 2021, v. 49, n. 4, p. 1840, doi. 10.1093/nar/gkaa1275

By:

Di Stefano, Marco;
Nützmann, Hans-Wilhelm;
Marti-Renom, Marc A;
Jost, Daniel

Publication type:

Article

NGS-based identification and tracing of microsatellite instability from minute amounts DNA using inter-Alu-PCR.

Published in:

Nucleic Acids Research, 2021, v. 49, n. 4, p. e24, doi. 10.1093/nar/gkaa1175

By:

Yu, Fangyan;
Leong, Ka Wai;
Makrigiorgos, Alexander;
Adalsteinsson, Viktor A;
Ladas, Ioannis;
Ng, Kimmie;
Mamon, Harvey;
Makrigiorgos, G Mike

Publication type:

Article

NOseq: amplicon sequencing evaluation method for RNA m6A sites after chemical deamination.

Published in:

Nucleic Acids Research, 2021, v. 49, n. 4, p. e23, doi. 10.1093/nar/gkaa1173

By:

Werner, Stephan;
Galliot, Aurellia;
Pichot, Florian;
Kemmer, Thomas;
Marchand, Virginie;
Sednev, Maksim V;
Lence, Tina;
Roignant, Jean-Yves;
König, Julian;
Höbartner, Claudia;
Motorin, Yuri;
Hildebrandt, Andreas;
Helm, Mark

Publication type:

Article

The CONJUDOR pipeline for multiplexed knockdown of gene pairs identifies RBBP-5 as a germ cell reprogramming barrier in C. elegans.

Published in:

Nucleic Acids Research, 2021, v. 49, n. 4, p. e22, doi. 10.1093/nar/gkaa1171

By:

Kazmierczak, Marlon;
Farré i Díaz, Carlota;
Ofenbauer, Andreas;
Herzog, Sergej;
Tursun, Baris

Publication type:

Article

CRISPRidentify: identification of CRISPR arrays using machine learning approach.

Published in:

Nucleic Acids Research, 2021, v. 49, n. 4, p. e20, doi. 10.1093/nar/gkaa1158

By:

Mitrofanov, Alexander;
Alkhnbashi, Omer S;
Shmakov, Sergey A;
Makarova, Kira S;
Koonin, Eugene V;
Backofen, Rolf

Publication type:

Article

Alignment free identification of clones in B cell receptor repertoires.

Published in:

Nucleic Acids Research, 2021, v. 49, n. 4, p. e21, doi. 10.1093/nar/gkaa1160

By:

Lindenbaum, Ofir;
Nouri, Nima;
Kluger, Yuval;
Kleinstein, Steven H

Publication type:

Article