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. 2022 Jan 10;3(1):101076. doi: 10.1016/j.xpro.2021.101076
REAGENT or RESOURCE SOURCE IDENTIFIER
Antibodies
EF1A1 Mouse Monoclonal antibody Proteintech Cat# 67495-1-Ig, RRID:AB_2882719
EF1D Mouse Monoclonal antibody Proteintech Cat# 60085-1-Ig, RRID:AB_2096996
Anti-FLAG-HRP Polyclonal Conjugate Sigma-Aldrich Cat#F7425, RRID:AB_439687
avidin-HRP Jackson ImmunoResearch Labs Cat# 115-035-003, RRID:AB_10015289
Chemicals, peptides, and recombinant proteins
Anti-Flag(DYKDDDDK) affinity gel Bimake Cat#B23102
3× Flag peptide Bimake Cat#B23112
High capacity streptavidin agarose Thermo Fisher Scientific Cat#20359
Protease inhibitor cocktail (100×) Bimake Cat#B14003
Unlabeled L-lysine hydrochloride (Lys-0) Silantes Cat#211004102
4,4′,5,5′-D4-L-lysine dihydrochloride (Lys-4) Silantes Cat#211104113
13C,15N-L-lysine hydrochloride (Lys-8) Silantes Cat#211604102
unlabeled L-arginine hydrochloride (Arg-0) Silantes Cat#201004102
13C-L-arginine hydrochloride (Arg-6) Silantes Cat#201204102
13C,15N-L-arginine hydrochloride (Arg-10) Silantes Cat#201604102
DMEM deficient in L-arginine and L-lysine Thermo Fisher Scientific Cat#88364
Fetal Bovine Serum Dialyzed Gibco Cat#30067-334
DMEM (high glucose, pyruvate) Gibco Cat#11995065
Fetal Bovine Serum Gibco Cat#10099141
PBS (Dulbecco's phosphate-buffered saline) BioChannel Cat#BC-BPBS-08
Trypsin-EDTA Solution with phenol red (0.25% Trypsin) BioChannel Cat#BC-CE-005
Sequencing Grade Modified Trypsin Promega Cat#V5111
2′3′-cGAMP Zhang et al. (2013) n/a
2′3′-cGAMP probes (Probe 1-3) Hou et al. (2021) n/a
Rhodamine-N3 Jiang et al. (2010) n/a
Biotin-N3 Jiang et al. (2010) n/a
CuBr Bidepharm Cat#BD122226, CAS No. 7787-70-4
CuSO4·5H2O China National Pharmaceutical Group Corp Cat#10008218, CAS No. 7758-99-8
TCEP Bidepharm Cat#BD155793, CAS No. 51805-45-9
TBTA TCI Cat#T2993, CAS No. 510758-28-8
STF-1623 Carozza et al. (2020) n/a
Critical commercial assays
BCA Protein Quantification Kit Yeasen Biotech Cat#20201ES76
Quick Start Bradford 1x Dye Reagent Bio-Rad Cat#500-0205
Experimental models: Cell lines
HeLa cells Junying Yuan’s Lab, IRCBC n/a
HEK 293T cells Junying Yuan’s Lab, IRCBC n/a
293T cells stably overexpressing Flag-EF1D Hou et al. (2021) n/a
Software and algorithms
ImageJ National Institutes of Health https://imagej.nih.gov/ij/
“Wu Kong” platform n/a https://www.omicsolution.com/wkomics/main/
Graphpad GraphPad Software Inc. https://www.graphpad.com
EnhancedVolcano n/a https://www.bioconductor.org/packages/release/bioc/vignettes/EnhancedVolcano/inst/doc/EnhancedVolcano.html
VolcaNoseR n/a https://huygens.science.uva.nl/VolcaNoseR/
MaxQuant software (version 1.5.3.30) Max Planck Institute of Biochemistry https://www.biochem.mpg.de/6304115/maxquant
Thermo Proteome Discoverer(2.1.0.81) Thermo Fisher Scientific https://www.thermofisher.com/us/en/home.html
Others
Ultraviolet Crosslinker CL-1000L (365 nm) UVP n/a
Ultrasonic Homogenizer SCIENTZ Cat#YJ92-IIN
Amicon Ultra-15 Centrifugal Concentrator (30 kD cutoff) Merck Cat#UFC903024
24-well plate JET BIOFIL Cat#TCP011024
Parafilm Merck Cat#P7793
plate shaker Dragonlab Cat#SK-R1807-E
rotational incubator Kylin-Bell Lab Instruments Cat#QB-128
Microfuge 20R centrifuge Beckman Coulter n/a
SL 16R centrifuge Thermo Scientific n/a
Concentrator plus Eppendorf Cat#5305000304
Avanti J-26XP High Performance Centrifuge Beckman Coulter n/a
C18 Tips Rappsilber et al. (2007) n/a
SpectraMax i3 Microplate Reader Molecular Devices n/a
Typhoon FLA 7000 Imager GE Healthcare n/a
cell lifter Corning Cat#CLS3008