Dhananjaya Nayak
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Explore the profile of Dhananjaya Nayak including associated specialties, affiliations and a list of published articles.
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11
Citations
406
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Recent Articles
1.
Parikh R, Nayak D, Lin H, Gangaraju V
J Biol Chem
. 2025 Jan;
301(3):108210.
PMID: 39848495
Transposable element (TE) silencing in the germline is crucial for preserving genome integrity; its absence results in sterility and diminished developmental robustness. The Piwi-interacting RNA (piRNA) pathway is the primary...
2.
Saba J, Chua X, Mishanina T, Nayak D, Windgassen T, Mooney R, et al.
Elife
. 2019 Jan;
8.
PMID: 30618376
Transcriptional pausing underlies regulation of cellular RNA biogenesis. A consensus pause sequence that acts on RNA polymerases (RNAPs) from bacteria to mammals halts RNAP in an elemental paused state from...
3.
Mishanina T, Palo M, Nayak D, Mooney R, Landick R
Proc Natl Acad Sci U S A
. 2017 Jun;
114(26):E5103-E5112.
PMID: 28607053
The active site of multisubunit RNA polymerases (RNAPs) is highly conserved from humans to bacteria. This single site catalyzes both nucleotide addition required for RNA transcript synthesis and excision of...
4.
Karam J, Parikh R, Nayak D, Rosenkranz D, Gangaraju V
J Biol Chem
. 2017 Feb;
292(15):6039-6046.
PMID: 28193840
Piwi-interacting RNAs (piRNAs) are 26-30-nucleotide germ line-specific small non-coding RNAs that have evolutionarily conserved function in mobile genetic element (transposons) silencing and maintenance of genome integrity. Hsp70/90-organizing protein homolog (Hop),...
5.
Bae B, Nayak D, Ray A, Mustaev A, Landick R, Darst S
Proc Natl Acad Sci U S A
. 2015 Jul;
112(31):E4178-87.
PMID: 26195788
RNA polymerase inhibitors like the CBR class that target the enzyme's complex catalytic center are attractive leads for new antimicrobials. Catalysis by RNA polymerase involves multiple rearrangements of bridge helix,...
6.
Windgassen T, Mooney R, Nayak D, Palangat M, Zhang J, Landick R
Nucleic Acids Res
. 2014 Oct;
42(20):12707-21.
PMID: 25336618
The conformational dynamics of the polymorphous trigger loop (TL) in RNA polymerase (RNAP) underlie multiple steps in the nucleotide addition cycle and diverse regulatory mechanisms. These mechanisms include nascent RNA...
7.
Larson M, Mooney R, Peters J, Windgassen T, Nayak D, Gross C, et al.
Science
. 2014 May;
344(6187):1042-7.
PMID: 24789973
Transcription by RNA polymerase (RNAP) is interrupted by pauses that play diverse regulatory roles. Although individual pauses have been studied in vitro, the determinants of pauses in vivo and their...
8.
Nayak D, Voss M, Windgassen T, Mooney R, Landick R
Mol Cell
. 2013 Jun;
50(6):882-93.
PMID: 23769674
Transcriptional pausing, which regulates transcript elongation in both prokaryotes and eukaryotes, is thought to involve formation of alternative RNA polymerase conformations in which nucleotide addition is inhibited in part by...
9.
Nayak D, Guo Q, Sousa R
J Biol Chem
. 2009 Mar;
284(20):13641-13647.
PMID: 19307179
Yeast mitochondrial (YMt) and phage T7 RNA polymerases (RNAPs) are two divergent representatives of a large family of single subunit RNAPs that are also found in the mitochondria and chloroplasts...
10.
Nayak D, Siller S, Guo Q, Sousa R
J Mol Biol
. 2008 Jan;
376(2):541-53.
PMID: 18166198
The T7RNA polymerase (RNAP) elongation complex (EC) pauses and is destabilized at a unique 8 nucleotide (nt) sequence found at the junction of the head-to-tail concatemers of T7 genomic DNA...