Biological samples |
|
Mouse fast psoas myofibrils from a 3-month female BALB/c mouse |
King’s College London |
N/A |
|
Deposited data |
|
Sub-volume average of in situ actomyosin complex |
This paper |
EMD: 12289 |
Sub-volume average of re-centered myosin double-head |
This paper |
EMD: 12291 |
Sub-volume average of I-band thin filaments without troponin |
This paper |
EMD: 12292 |
Sub-volume average of I-band thin filaments including troponin |
This paper |
EMD: 12293 |
Homology model of in situ actomyosin complex |
This paper |
PDB: 7NEP
|
Cryo-EM structure of in vitro cytoplasmic actomyosin complex |
von der Ecken et al., 2016 |
PDB: 5JLH
|
Crystal structure of rigor-like squid myosin S1 fragment |
Yang et al., 2007 |
PDB: 3I5G
|
Cryo-EM structure of human cardiac thin filament in calcium-bound state |
Yamada et al., 2020 |
PDB: 6KN8
|
Cryo-EM structure of human cardiac thin filament in calcium-free state |
Yamada et al., 2020 |
PDB: 6KN7
|
Cryo-EM structure of relaxed myosin heads in insect flight muscle |
Hu et al., 2016; Knupp et al., 2019
|
PDB: 6SO3
|
Crystal structure of human myosin S2 fragment |
Blankenfeldt et al., 2006 |
PDB: 2FXM
|
Crystal structure of human α-actinin 2 |
Ribeiro et al., 2014 |
PDB: 4D1E
|
Cryo-EM structure of actin filament decorated by filamin A CH1 domain |
Iwamoto et al., 2018 |
PDB: 6D8C
|
|
Software and algorithms |
|
SerialEM |
Mastronarde, 2005 |
https://bio3d.colorado.edu/SerialEM/ |
MotionCorr2 |
Zheng et al., 2017 |
https://emcore.ucsf.edu/ucsf-software |
EMAN2 |
Tang et al., 2007 |
https://blake.bcm.edu/emanwiki/EMAN2 |
IMOD |
Kremer et al., 1996 |
https://bio3d.colorado.edu/imod/ |
crYOLO |
Wagner et al., 2019 |
https://cryolo.readthedocs.io |
RELION3 |
Bharat and Scheres, 2016 |
https://www3.mrc-lmb.cam.ac.uk/relion/index.php?title=Main_Page |
PEET |
Heumann et al., 2011; Nicastro et al., 2006
|
https://bio3d.colorado.edu/PEET/ |
ISAC |
Yang et al., 2012 |
http://sphire.mpg.de/wiki/doku.php?id=gpu_isac |
SPHIRE |
Moriya et al., 2017 |
https://sphire.mpg.de/ |
TrackMate plug-in in Fiji |
Tinevez et al., 2017 |
https://imagej.net/TrackMate |
Fiji (ImageJ) |
Schindelin et al., 2012; Schneider et al., 2012
|
https://imagej.net/Fiji |
TEMPy |
Farabella et al., 2015 |
http://tempy.ismb.lon.ac.uk/ |
SWISS-MODEL |
Bertoni et al., 2017; Bienert et al., 2017; Guex et al., 2009; Studer et al., 2020; Waterhouse et al., 2018
|
https://swissmodel.expasy.org/ |
Chimera |
Pettersen et al., 2004 |
https://www.cgl.ucsf.edu/chimera/ |
Amira2019.3 |
Thermo Fisher Scientific |
https://www.thermofisher.com/us/en/home/industrial/electron-microscopy/electron-microscopy-instruments-workflow-solutions/3d-visualization-analysis-software/amira-life-sciences-biomedical.html |
MUSCLE algorithm in msa R package |
Edgar, 2004 |
https://www.rdocumentation.org/packages/msa |