Bacterial and virus strains |
|
BL21(DE3) |
Thermo Fisher Scientific (Rockford, IL) |
EC0114 |
|
Chemicals, peptides, and recombinant proteins |
|
Ubiquitin like protease (ULP) |
Sigma-Aldrich (St. Louis, MO) |
SAE0067 |
Thrombin |
Sigma-Aldrich (St. Louis, MO) |
|
Palmitoyl-coenzyme A |
Avanti Polar Lipids, Inc. (Alabaster, AL) |
|
Restriction enzymes, DNA polymerases, ligase, DNA, and protein markers |
Thermo Fisher Scientific (Rockford, IL) |
|
Ni-NTA resin |
Clontech Laboratories (Mountain View, CA) |
|
|
Deposited data |
|
SMT3 structure |
PDB: 3PGE
|
|
VLCAD structure |
PDB: 3B96
|
|
MCAD-ETF structure |
PDB: 2A1T
|
|
|
Oligonucleotides |
|
5′-TAATACGACTCACTATAGGG-3′ |
This work |
T7 promoter |
5′-CCCGGC GTCGAC TCA GTG ATG ATG-GTG GTG ATG GCT CCC GCA GGT GCG GTC CAG AGG-3′ |
This work |
3′ antisense |
|
Recombinant DNA |
|
ECSIT (UniProtKB-Q9BQ95) cDNA |
GenScript (Piscataway, USA) |
|
NDUFAF1 (UniProtKB-Q9Y375) cDNA |
GenScript (Piscataway, USA) |
|
pET21b vector |
Sigma Aldrich |
69741 |
pET28a vector |
Sigma Aldrich |
69864 |
His6-SMT3-pET28a vector |
|
|
QuickChange Site-Directed Mutagenesis Kit |
Agilent |
200519 |
|
Software and algorithms |
|
Protein Calculator v3.4 |
|
http://protcalc.sourceforge.net/ |
ATSAS |
(Franke et al., 2017) |
https://www.embl-hamburg.de/biosaxs/software.html |
PRIMUS |
(Konarev et al., 2003) |
https://www.embl-hamburg.de/biosaxs/software.html |
GNOM |
(Svergun, 1992) |
https://www.embl-hamburg.de/biosaxs/software.html |
DAMMIF |
(Franke and Svergun, 2009) |
https://www.embl-hamburg.de/biosaxs/software.html |
DAMSTART |
(Petoukhov et al., 2012) |
https://www.embl-hamburg.de/biosaxs/software.html |
DAMMIN |
(Svergun, 1999) |
https://www.embl-hamburg.de/biosaxs/software.html |
SWISS-MODEL server |
(Waterhouse et al., 2018) |
https://swissmodel.expasy.org/ |
Robetta web server |
(Kim et al., 2004) |
https://robetta.bakerlab.org/ |
GalaxyGemini server |
(Lee et al., 2013) |
http://galaxy.seoklab.org/cgi-bin/submit.cgi?type=GEMINI |
SUPCOMB |
(Kozin and Svergun, 2001) |
https://www.embl-hamburg.de/biosaxs/software.html |
UCSF Chimera |
(Pettersen et al., 2004) |
https://www.cgl.ucsf.edu/chimera/ |
FoXS server |
(Schneidman-Duhovny et al., 2013; Svergun, 1999) |
https://modbase.compbio.ucsf.edu/foxs/ |
Phyre2 |
(Kelley et al., 2015) |
http://www.sbg.bio.ic.ac.uk/phyre2/html/page.cgi?id=index |
Graphpad PRISM |
|
https://www.graphpad.com/company/ |