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pro vyhledávání: '"Martin Karplus"'
Autor:
Simone Conti, Victor Ovchinnikov, Jonathan G. Faris, Arup K. Chakraborty, Martin Karplus, Kayla G. Sprenger
Publikováno v:
PLoS Computational Biology, Vol 18, Iss 4 (2022)
The design of vaccines against highly mutable pathogens, such as HIV and influenza, requires a detailed understanding of how the adaptive immune system responds to encountering multiple variant antigens (Ags). Here, we describe a multiscale model of
Externí odkaz:
https://doaj.org/article/1fb711c145304bb7a7da516379116abf
Autor:
Victor Ovchinnikov, Martin Karplus
Publikováno v:
Frontiers in Immunology, Vol 13 (2022)
The elicitation of broadly neutralizing antibodies (bnAbs) is a major goal in the design of vaccines against rapidly-mutating viruses. In the case of influenza, many bnAbs that target conserved epitopes on the stem of the hemagglutinin protein (HA) h
Externí odkaz:
https://doaj.org/article/20919af4974945a58a8021039cd9f1d4
Autor:
Uddhav K. Shigdel, Victor Ovchinnikov, Seung-Joo Lee, Jenny A. Shih, Martin Karplus, Kwangho Nam, Gregory L. Verdine
Publikováno v:
Nature Communications, Vol 11, Iss 1, Pp 1-8 (2020)
DNA glycosylases are lesion-specific enzymes that recognize specific nucleobase damages and catalyze their excision through cleavage of the glycosidic bond. Here, the authors present the crystal structures of human 8-oxoguanine (oxoG) DNA glycosylase
Externí odkaz:
https://doaj.org/article/60b39eb87d0b47c4a0f3eab9bd903e6e
Publikováno v:
eLife, Vol 8 (2019)
We recently reported that molecular dynamics simulations for hemoglobin require a surprisingly large box size to stabilize the T(0) state relative to R(0), as observed in experiments (El Hage et al., 2018). Gapsys and de Groot have commented on this
Externí odkaz:
https://doaj.org/article/cf0ccba87d8f4b51a0db52174f9675af
Autor:
Simone Conti, Martin Karplus
Publikováno v:
PLoS Computational Biology, Vol 15, Iss 4, p e1006954 (2019)
HIV is a highly mutable virus for which all attempts to develop a vaccine have been unsuccessful. Nevertheless, few long-infected patients develop antibodies, called broadly neutralizing antibodies (bnAbs), that have a high breadth and can neutralize
Externí odkaz:
https://doaj.org/article/988d62c3d0024f36be8d3a82400c9ff4
Publikováno v:
eLife, Vol 7 (2018)
Recent molecular dynamics (MD) simulations of human hemoglobin (Hb) give results in disagreement with experiment. Although it is known that the unliganded (T[Formula: see text]) and liganded (R[Formula: see text]) tetramers are stable in solution, th
Externí odkaz:
https://doaj.org/article/de9a45aec69a4949894030cbef4d5507
Publikováno v:
eLife, Vol 7 (2018)
Eliciting antibodies that are cross reactive with surface proteins of diverse strains of highly mutable pathogens (e.g., HIV, influenza) could be key for developing effective universal vaccines. Mutations in the framework regions of such broadly neut
Externí odkaz:
https://doaj.org/article/69892df03aa94b2f99c06bbbc7547df3
Publikováno v:
eLife, Vol 6 (2017)
The microtubule (MT)-associated motor protein kinesin utilizes its conserved ATPase head to achieve diverse motility characteristics. Despite considerable knowledge about how its ATPase activity and MT binding are coupled to the motility cycle, the a
Externí odkaz:
https://doaj.org/article/54609733a60045418161075cda4cb866
Autor:
Mason Klein, Sergei V Krivov, Anggie J Ferrer, Linjiao Luo, Aravinthan DT Samuel, Martin Karplus
Publikováno v:
eLife, Vol 6 (2017)
Many organisms—from bacteria to nematodes to insect larvae—navigate their environments by biasing random movements. In these organisms, navigation in isotropic environments can be characterized as an essentially diffusive and undirected process.
Externí odkaz:
https://doaj.org/article/826210d3ef5d4ea0b7b3e73043631d27
Autor:
Nicholas M Levinson, Olga Kuchment, Kui Shen, Matthew A Young, Michael Koldobskiy, Martin Karplus, Philip A Cole, John Kuriyan
Publikováno v:
PLoS Biology, Vol 4, Iss 5, p e144 (2006)
The improper activation of the Abl tyrosine kinase results in chronic myeloid leukemia (CML). The recognition of an inactive conformation of Abl, in which a catalytically important Asp-Phe-Gly (DFG) motif is flipped by approximately 180 degrees with
Externí odkaz:
https://doaj.org/article/cf9f05868898426b810f60264dfb10c1