Results 91 to 100 of about 6,313,615 (343)

Exploring Applications of Crowdsourcing to Cryo-EM

Journal of Structural Biology, 2017
Abstract Extraction of particles from cryo-electron microscopy (cryo-EM) micrographs is a crucial step in processing single-particle datasets. Although algorithms have been developed for automatic particle picking, these algorithms generally rely on two-dimensional templates for particle identification, which may exhibit biases that can
Bruggemann, Jacob, Lander, Gabriel C., Su, Andrew I.   +2 more
openaire   +2 more sources

Cryo-EM data processing and analysis of AMPPNP-LolCDE.

, 2022
(A) Representative cryo-EM micrograph of AMPPNP-LolCDE in nanodisc. (B) Selected 2D class averages of cryo-EM particle images. (C) Scheme of 3D classification and refinement of cryo-EM particle images.
Yihua Huang (245089), Weiwei Bei (13955910), Qingshan Luo (13955913), Haizhen Zhou (6518822), Xinzheng Zhang (309306), Huigang Shi (8996974), Min Zhou (173135)   +6 more
core   +1 more source

Guiding AlphaFold to predict how Munc13‐1 opens Syntaxin‐1

FEBS Open Bio, EarlyView.
The syntaxin‐1 Habc‐domain (orange), linker (pink) and SNARE motif (yellow) form a closed conformation that binds to Munc18‐1 (violet) and is opened by the Munc13‐1 MUN domain (cyan) to form the SNARE complex that triggers neurotransmitter release.
Madhurima Chattopadhyay, Junjie Xu, Josep Rizo   +2 more
wiley   +1 more source

Eliminating effects of particle adsorption to the air/water interface in single-particle cryo-electron microscopy: Bacterial RNA polymerase and CHAPSO

Journal of Structural Biology: X, 2019
Preferred particle orientation presents a major challenge for many single particle cryo-electron microscopy (cryo-EM) samples. Orientation bias limits the angular information used to generate three-dimensional maps and thus affects the reliability and ...
James Chen, Alex J. Noble, Jin Young Kang, Seth A. Darst   +3 more
doaj   +1 more source

Importin 7 mediates the nuclear import of HIV‐1 integrase via a specific interacting interface

FEBS Open Bio, EarlyView.
HIV‐1 integrase enables viral DNA integration into the host genome. By binding to the core domain of the host protein Importin 7 via its C‐terminal domain, the integrase is transported across the nuclear membrane into the nucleus, where integration of the viral genome into host DNA takes place. This translocation is a critical step for subsequent viral
Juana Bana, Avigail Yariv, Tal Oppenheim, Hadar Amartely, Dana Reichmann, Oded Livnah   +5 more
wiley   +1 more source

Structural studies and functional engineering of NanX: an anhydro‐sialic acid transporter from Escherichia coli

FEBS Open Bio, EarlyView.
Biophysical characterisation shows that NanX, a membrane transport protein from the major facilitator superfamily (MFS), forms both monomers and dimers after purification. AlphaFold modelling and substrate docking provide information on residues likely involved in substrate recognition for NanX and another MFS member, NanT.
Michael C. Newton‐Vesty, Kelsi R. Hall, Zachary D. Tillett, Liam S. Turk, James S. Davies, Michael J. Currie, Hamish G. Brown, Sepideh Valimehr, Peter D. Mace, Andrew E. Whitten, Santosh Panjikar, Eric Hanssen, Rachel A. North, Renwick C.J. Dobson   +13 more
wiley   +1 more source

Cryo-EM processing and TM maps of GALR2.

, 2022
(A) The collected data were processed using cryoSPARC. Through 2D and 3D classification, final 479,312 particles were selected for reconstruction. The resolution of GALR2 complex was determined at 3.11 Å.
Hideo Fukuhara (494318), Weontae Lee (410997), Asuka Inoue (52011), Kouki Kawakami (10688338), Ji-Hye Yun (410992), Sam-Yong Park (401887), Katsumi Maenaka (457393), Yunseok Heo (13184337), Yuki Anraku (13184346), Mina Sasaki (812280), Naito Ishimoto (13184340), Mio Ohki (401886), Ye-Eun Jeon (13184343), Shunsuke Kita (3189747), Tatsuya Ikuta (1683052), Jeremy R. H. Tame (10077989)   +15 more
core   +1 more source

A Holistic Platform Approach for Developing Robust Pulmonary mRNA Delivery: Integrating Novel Phenolic Acid‐Derived Ionizable Lipids and Device Engineering

Advanced Functional Materials, EarlyView.
An integrated pulmonary mRNA delivery platform combining novel biodegradable syringic acid‐derived ionizable lipids, design‐of‐experiments formulation optimization, and vibrating‐mesh nebulizer engineering enabled stable aerosolization and efficient lung delivery.
Neha Kaushal, Younan Ma, Asad Khanmohammed, Dipen Parande, Hanming Zhang, Saket Dolare, Juliet Chen, Apiwat Wangweerawong, Saswata Karmakar, Hongfeng Deng, Frank Koppenhagen, Shraddha Sharma, Eric Reyes, Sherry He, Lianne Boeglin, Caroline Woo, Azadeh Paksa, Ayed Allawzi, Anusha Dias, Gregory Troiano, Shrirang Karve, Frank DeRosa   +21 more
wiley   +1 more source

Structural rearrangements of the histone octamer translocate DNA

Nature Communications, 2018
Nucleosomes are dynamic and can move along DNA in an uncatalyzed manner but little is known about the mechanisms of histone octamer translocation. Here the authors present cryo-EM structures of nucleosomes in differently organized histone octamer and DNA
Silvija Bilokapic, Mike Strauss, Mario Halic   +2 more
doaj   +1 more source

A deep convolutional neural network approach to single-particle recognition in cryo-electron microscopy

BMC Bioinformatics, 2017
Background Single-particle cryo-electron microscopy (cryo-EM) has become a mainstream tool for the structural determination of biological macromolecular complexes.
Yanan Zhu, Qi Ouyang, Youdong Mao
doaj   +1 more source