Results 111 to 120 of about 43,119 (293)

Capturing the essence of folding and functions of biomolecules using Coarse-Grained Models

, 2011
The distances over which biological molecules and their complexes can function range from a few nanometres, in the case of folded structures, to millimetres, for example during chromosome organization. Describing phenomena that cover such diverse length,
A Dhar, A Elcock, A Elcock, A Grosberg, A Grosberg, A Minton, A Pisliakov, A Podtelezhnikov, A Rychkova, A Savelyev, A Vologodskii, AA Podtelezhnikov, B Messer, BJ Alder, C Bustamante, C Clementi, C Hyeon, C Hyeon, C Hyeon, C Hyeon, C Hyeon, C Hyeon, C Hyeon, C Hyeon, C Hyeon, C Hyeon, D Thirumalai, D Thirumalai, D Thirumalai, D Thirumalai, D Thirumalai, E Koculi, E Lieberman-Aiden, E O'Brien, E Shakhnovich, EP O'Brien, F Valle, G Lorimer, G Papoian, G Ziv, H Liu, H Ma, HX Zhou, I Tinoco Jr., J Chen, J Harms, J Karanicolas, J Straub, JD Honeycutt, JM Fernandez, JN Onuchic, KA Dill, M Levitt, M Mickler, M Strajbl, M Takano, ME Fisher, MJ Todd, MS Cheung, N Hirokawa, N Koga, N Toan, OK Dudko, P Weinkam, PB Moore, PC Whitford, Q Du, R Russell, R Tehver, R Tehver, RD Vale, RD Vale, RI Dima, RW Pastor, S Jun, S Jun, S Jun, S Kamerlin, S Kirkpatrick, S Moghaddam, SB Smith, SJ Chen, SJ Marrink, T Cloutier, T Cremer, T Kirkpatrick, T Veitshans, V Lubchenko, Z Liu, Z Xu   +89 more
core   +1 more source

RNA catalysis in model protocell vesicles. [PDF]

, 2005
We are engaged in a long-term effort to synthesize chemical systems capable of Darwinian evolution, based on the encapsulation of self-replicating nucleic acids in self-replicating membrane vesicles.
Chen, Irene A, Salehi-Ashtiani, Kourosh, Szostak, Jack W   +2 more
core   +2 more sources

A Ribozyme for the Aldol Reaction [PDF]

Chemistry & Biology, 2005
Directed in vitro evolution can create RNA catalysts for a variety of organic reactions, supporting the "RNA world" hypothesis, which proposes that metabolic transformations in early life were catalyzed by RNA molecules rather than proteins. Among the most fundamental carbon-carbon bond-forming reactions in nature is the aldol reaction, mainly ...
Alexander Eisenführ, Alexander Heckel, Michael Famulok, Stefan Fusz, Seergazhi G. Srivatsan   +4 more
openaire   +3 more sources

Two Divalent Metal Ions and Conformational Changes Play Roles in the Hammerhead Ribozyme Cleavage Reaction.

Biochemistry, 2015
The hammerhead ribozyme is a self-cleaving RNA broadly dispersed across all kingdoms of life. Although it was the first of the small, nucleolytic ribozymes discovered, the mechanism by which it catalyzes its reaction remains elusive.
Aamir Mir, Ji Chen, Kyle T. Robinson, E. Lendy, J. Goodman, D. Neau, B. Golden   +6 more
semanticscholar   +1 more source

Error thresholds for self- and cross-specific enzymatic replication [PDF]

, 2010
The information content of a non-enzymatic self-replicator is limited by Eigen's error threshold. Presumably, enzymatic replication can maintain higher complexity, but in a competitive environment such a replicator is faced with two problems related to ...
Acevedo, Alves, Baake, Benedikt Obermayer, Blythe, Campos, Cech, de Oliveira, Doudna, Eigen, Eigen, Erwin Frey, Fernando, Fontanari, Galluccio, Gerland, Gilbert, Hermisson, Huynen, Johnston, Joyce, Komarova, Kun, Leuthäusser, Lilley, Lincoln, Lässig, Maynard Smith, Michod, Nowak, Obermayer, Orgel, Orgel, Pace, Peliti, Rajamani, Rawlings, Saakian, Saakian, Schuster, Stadler, Stadler, Summers, Swetina, Szathmáry, Szostak, Takeuchi, Takeuchi, von Kiedrowski, Wagner, Weiner, Wiehe, Wilke, Wilke, Woodcock, Wu, Zaher   +56 more
core   +4 more sources

Ribozyme-Spherical Nucleic Acids.

Journal of the American Chemical Society, 2015
Ribozymes are highly structured RNA sequences that can be tailored to recognize and cleave specific stretches of mRNA. Their current therapeutic efficacy remains low due to their large size and structural instability compared to shorter therapeutically ...
J. Rouge, T. Sita, Liangliang Hao, F. Kouri, William E. Briley, A. Stegh, C. Mirkin   +6 more
semanticscholar   +1 more source

Phylogeny of conserved adenines in linkers of Group-I introns [PDF]

, 2009
We have analyzed the linkers in group-I introns, a characteristic region that is crucial to the folding and splicing process of the folded RNA, in seventy sequences spreading across r-RNA, t-RNA and organelle genes from various organisms including algae,
Chandrasekhar Kesavan, Natarajan Ganesan
core   +1 more source

Prediction and statistics of pseudoknots in RNA structures using exactly clustered stochastic simulations

, 2003
Ab initio RNA secondary structure predictions have long dismissed helices interior to loops, so-called pseudoknots, despite their structural importance.
A. Xayaphoummine, Evers, F. Thalmann, Ferr  -D'Amar  , Giedroc, Gultyaev, H. Isambert, Higgs, Lehnert, Mathews, McCaskill, Mironov, Pan, Pleij, Rivas, Russell, Sclavi, Shirts, T. Bucher, Tinoco, Treiber, Zarrinkar, Zuker   +22 more
core   +3 more sources

Cryo-EM structures of full-length Tetrahymena ribozyme at 3.1 Å resolution

Nature, 2021
Z. Su, Kaiming Zhang, K. Kappel, Shanshan Li, Michael Z. Palo, G. Pintilie, R. Rangan, B. Luo, Yuquan Wei, R. Das, W. Chiu   +10 more
semanticscholar   +1 more source

A Mini-Twister Variant and Impact of Residues/Cations on the Phosphodiester Cleavage of this Ribozyme Class.

Angewandte Chemie, 2015
Nucleolytic ribozymes catalyze site-specific cleavage of their phosphodiester backbones. A minimal version of the twister ribozyme is reported that lacks the phylogenetically conserved stem P1 while retaining wild-type activity.
M. Košutić, Sandro Neuner, A. Ren, S. Flür, C. Wunderlich, E. Mairhofer, Nikola Vušurović, Jan Seikowski, K. Breuker, C. Höbartner, D. Patel, C. Kreutz, R. Micura   +12 more
semanticscholar   +1 more source