Search Results - "Nayak, Dhananjaya"

A pause sequence enriched at translation start sites drives transcription dynamics in vivo by Larson, Matthew H., Mooney, Rachel A., Peters, Jason M., Windgassen, Tricia, Nayak, Dhananjaya, Gross, Carol A., Block, Steven M., Greenleaf, William J., Landick, Robert, Weissman, Jonathan S.

“…Transcription by RNA polymerase (RNAP) is interrupted by pauses that play diverse regulatory roles. Although individual pauses have been studied in vitro, the…”
Get full text

The elemental mechanism of transcriptional pausing by Saba, Jason, Chua, Xien Yu, Mishanina, Tatiana V, Nayak, Dhananjaya, Windgassen, Tricia A, Mooney, Rachel Anne, Landick, Robert

“…Transcriptional pausing underlies regulation of cellular RNA biogenesis. A consensus pause sequence that acts on RNA polymerases (RNAPs) from bacteria to…”
Get full text

Cys-Pair Reporters Detect a Constrained Trigger Loop in a Paused RNA Polymerase by Nayak, Dhananjaya, Voss, Michael, Windgassen, Tricia, Mooney, Rachel Anne, Landick, Robert

“…Transcriptional pausing, which regulates transcript elongation in both prokaryotes and eukaryotes, is thought to involve formation of alternative RNA…”
Get full text

CBR antimicrobials inhibit RNA polymerase via at least two bridge-helix cap-mediated effects on nucleotide addition by Bae, Brian, Nayak, Dhananjaya, Ray, Ananya, Mustaev, Arkady, Landick, Robert, Darst, Seth A.

“…RNA polymerase inhibitors like the CBR class that target the enzyme’s complex catalytic center are attractive leads for new antimicrobials. Catalysis by RNA…”
Get full text

A Promoter Recognition Mechanism Common to Yeast Mitochondrial and Phage T7 RNA Polymerases by Nayak, Dhananjaya, Guo, Qing, Sousa, Rui

“…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…”
Get full text

Trigger loop of RNA polymerase is a positional, not acid–base, catalyst for both transcription and proofreading by Mishanina, Tatiana V., Palo, Michael Z., Nayak, Dhananjaya, Mooney, Rachel A., Landick, Robert

“…The active site of multisubunit RNA polymerases (RNAPs) is highly conserved from humans to bacteria. This single site catalyzes both nucleotide addition…”
Get full text

Co-chaperone Hsp70/Hsp90-organizing protein (Hop) is required for transposon silencing and Piwi-interacting RNA (piRNA) biogenesis by Karam, Joseph A., Parikh, Rasesh Y., Nayak, Dhananjaya, Rosenkranz, David, Gangaraju, Vamsi K.

“…Piwi-interacting RNAs (piRNAs) are 26–30-nucleotide germ line-specific small non-coding RNAs that have evolutionarily conserved function in mobile genetic…”
Get full text

Trigger-helix folding pathway and SI3 mediate catalysis and hairpin-stabilized pausing by Escherichia coli RNA polymerase by Windgassen, Tricia A, Mooney, Rachel Anne, Nayak, Dhananjaya, Palangat, Murali, Zhang, Jinwei, Landick, Robert

“…The conformational dynamics of the polymorphous trigger loop (TL) in RNA polymerase (RNAP) underlie multiple steps in the nucleotide addition cycle and diverse…”
Get full text

A Promoter Recognition Mechanism Common to Yeast Mitochondrial and Phage T7 RNA PolymerasesS by Nayak, Dhananjaya, Guo, Qing, Sousa, Rui

“…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…”
Get full text

Functional Architecture of T7 RNA Polymerase Transcription Complexes by Nayak, Dhananjaya, Guo, Qing, Sousa, Rui

“…Bacteriophage T7 RNA polymerase is the best-characterized member of a widespread family of single-subunit RNA polymerases. Crystal structures of T7 RNA…”
Get full text

Mechanism of T7 RNAP Pausing and Termination at the T7 Concatemer Junction: A Local Change in Transcription Bubble Structure Drives a Large Change in Transcription Complex Architecture by Nayak, Dhananjaya, Siller, Sylvester, Guo, Qing, Sousa, Rui

“…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…”
Get full text

Major Conformational Changes During T7RNAP Transcription Initiation Coincide with, and are Required for, Promoter Release by Guo, Qing, Nayak, Dhananjaya, Brieba, Luis G., Sousa, Rui

“…During transcription initiation conformational changes in the transcriptional machinery are required to accommodate the growing RNA, to allow the polymerase to…”
Get full text

Conformational mechanisms in T7 RNA polymerase transcription by Nayak, Dhananjaya

“…The ∼99 kDa single-subunit bacteriophage T7 RNA polymerase (T7RNAP) is the most extensively studied member of a widespread family of single-subunit RNA…”
Get full text

Conformational mechanisms in T7 RNA polymerase transcription by Nayak, Dhananjaya

“…The ∼99 kDa single-subunit bacteriophage T7 RNA polymerase (T7RNAP) is the most extensively studied member of a widespread family of single-subunit RNA…”
Get full text