Posts Tagged ‘cryoEM’

Cryo-EM structure of substrate-bound human telomerase holoenzyme | Nature

Sunday, April 29th, 2018

#CryoEM structure of substrate-bound human telomerase holoenzyme https://www.Nature.com/articles/s41586-018-0062-x Quote: “2 flexibly RNA-tethered lobes: the catalytic core (w/ #TERT & conserved motifs of telomerase RNA) & an H/ACA RNP”

What to expect in 2018: science in the new year

Sunday, January 14th, 2018

What to expect in ’18: science in the new year
https://www.Nature.com/articles/d41586-018-00009-5 Insights from cancer & ancient #genomes. Cures from #CRISPR. Progress in
#OpenAccess. Also, lots on outer space. But nothing on #cryoEM, #DeepLearning, #QuantumComputing or the brain connectome. HT @OBahcall

Cryo-Electron Tomography at Yale

Saturday, December 23rd, 2017

http://www.cryoet.org/

Cutting Edge: Building bridges between cellular and molecular structural biology

Saturday, December 23rd, 2017

Cutting Edge: Building bridges between cellular & mol. structural biology https://ELIFEsciences.org/articles/25835 quote: “The use of structured biological #annotation is not common practice in
#cryoEM…[but] by the end of the meeting there was a clearer appreciation of the importance of [this]”

QT:{{”
As previously explained, structured biological annotation is the association of data with identifiers and ontologies taken from well-established bioinformatics resources. The use of structured biological annotation is not common practice in the electron microscopy or structural biology communities. Therefore, ontology experts were invited to the workshop to explain why these are useful and what resources and tools are available for assigning annotations. Use-cases such as mouse imaging data helped to explain the principles and practice of structured biological annotation. By the end of the meeting there was a clearer appreciation of the importance of structured biological annotation for searching and linking imaging data across different scales, between different imaging and structural databases and with other bioinformatics resources.”
“}}

Cryo-EM Structures of the Magnesium Channel CorA Reveal Symmetry Break upon Gating – ScienceDirect

Friday, December 1st, 2017

QT:{{”
• Find 3.8 Å resolution cryo-EM structure of the ∼200 kDa magnesium channel CorA • Mg2+-free CorA exhibits dramatic loss of symmetry in the cytoplasmic domain …
• Inter-subunit Mg2+ is important for stabilizing the closed state of CorA “}}

#CryoEM Structures of the Mg++ Channel CorA Reveal Symmetry Break upon Gating https://www.ScienceDirect.com/science/article/pii/S0092867415017195 In closed conformation: 5 identical subunits arranged tightly around 5-fold axis & pore. In open: they lose bridging ions & open to differing degrees with helix-hinging motions.

Matthies D1, Dalmas O2, Borgnia MJ1, Dominik PK2, Merk A1, Rao P1, Reddy BG2, Islam S2, Bartesaghi A1, Perozo E3, Subramaniam S4. Cell. 2016 Feb 11;164(4):747-56. doi: 10.1016/j.cell.2015.12.055.

Atomic structure of the entire mammalian mitochondrial complex I | Nature

Sunday, November 26th, 2017

Atomic structure of the entire mammalian mitochondrial complex I https://www.Nature.com/articles/nature19794 Synthesizing #cryoEM w/ (high-FP) cross-linking data to gets a 3.9A structure w/ 78 helices

Fiedorczuk, K., Letts, J.A., Degliesposti, G., Kaszuba, K., Skehel, M., Sazanov, L.A. (2016) Atomic structure of the entire mammalian mitochondrial complex I. Nature 538; 406-410.

related to:
• Letts, J.A., Fiedorczuk, K., Sazanov, L.A. (2016) The architecture of respiratory supercomplexes. Nature 537; 644-648.

Quantifying the local resolution of cryo-EM density maps | Nature Methods

Wednesday, November 15th, 2017

Quantifying the local resolution of #cryoEM density maps
https://www.Nature.com/articles/nmeth.2727 “Theory…based on the following idea: a L Angstrom feature exists at a pt…if a 3D local sinusoid of wavelength L is statistically detectable above noise at that point.”

QT:{{”
We propose a mathematical theory and an efficient algorithm for measuring local resolution that address all of the above limitations. The theory (Online Methods) is based on the following idea: a λ-Å feature exists at a point in the volume if a three-dimensional (3D) local sinusoid of wavelength λ is statistically detectable above noise at that point. A likelihood-ratio hypothesis test of the local sinusoid versus noise can detect this feature at a given P value (typically P = 0.05). We define the local resolution at a point as the smallest λ at which the local sinusoid is detectable, and we account for multiple testing with an FDR procedure.
“}}

Welcome | ScienceHill-CryoEM

Sunday, October 29th, 2017

http://sciencehill-cryoem.yale.edu/
cryoem.yale.edu
https://medicine.yale.edu/ccmi/

Visualizing the molecular sociology at the HeLa cell nuclear periphery | Science

Friday, October 27th, 2017

http://science.sciencemag.org/content/351/6276/969.long

#Visualizing the molecular sociology [of complexes] at the HeLa cell nuclear periphery, w/ #CryoET at 10 Ang. res. http://science.ScienceMag.org/content/351/6276/969.long

Science. 2016 Feb 26;351(6276):969-72. doi: 10.1126/science.aad8857.
Visualizing the molecular sociology at the HeLa cell nuclear periphery.
Mahamid J1, Pfeffer S2, Schaffer M2, Villa E3, Danev R2, Cuellar LK2, Förster F2, Hyman AA4, Plitzko JM2, Baumeister W1.

Cryo-electron microscopy wins chemistry Nobel : Nature News & Comment

Friday, October 6th, 2017

Cryo-EM wins chem Nobel
http://www.Nature.com/news/cryo-electron-microscopy-wins-chemistry-nobel-1.22738 Key techdev work in ’80s on flash freezing + atomic res. imaging of xtal & unordered samples