Antibodies |
|
Rabbit polyclonal antibody against Drosophila Unr |
Generated in-house in Dr. Gebauer laboratory |
N/A |
Mouse monoclonal antibody against V5 |
Invitrogen |
RRID: AB_2556564
|
Mouse monoclonal antibody against a-tubulin |
Sigma |
T9026-100UL; RRID: AB_477593
|
|
Bacterial and Virus Strains |
|
E. coli chemically competent BL21(DE3) |
ThermoFisher |
C600003 |
E. coli chemically competent Dh5a-T1R |
ThermoFisher |
12297016 |
|
Chemicals, Peptides, and Recombinant Proteins |
|
Anti-FLAG M2 magnetic beads |
Sigma |
M8823-1ML |
Schneider‘s Drosophila medium |
ThermoFisher |
21720001 |
FBS |
ThermoFisher |
10270106 |
Effectene |
QIAGEN |
301425 |
Pierce ECL Western Blotting Substrate |
ThermoFisher |
32209 |
RNase OUT |
ThermoFisher |
10777019 |
pCp-Cy5 |
Jena Bioscience |
NU-1706-Cy5 |
Pierce Protein A/G Magnetic Beads |
ThermoFisher |
88803 |
Sequencing Grade modified trypsin |
Promega |
V5111 |
TMT10plex |
ThermoFisher |
90110 |
AAA AAA AUG RNA oligomer |
Biomers |
N/A |
AAA AAA AAA AAA AAA RNA oligomer |
Biomers |
N/A |
|
Critical Commercial Assays |
|
BCA Assay Kit |
ThermoFisher |
23227 |
Dual Luciferase Assay System |
Promega |
E1910 |
Megascript T7 kit |
ThermoFisher |
AM1334 |
Galacto Star (Tropix) |
ThermoFisher |
T1012 |
Renilla-Glo® Luciferase Assay System |
Promega |
E2710 |
Turbo DNA free Kit |
ThermoFisher |
AM1907 |
SuperScript II reverse transcriptase |
ThermoFisher |
18064014 |
NEBNext Ultra II Directional RNA Library Prep Kit for Illumina |
NEB |
E7760 |
Pierce Silver Stain Kit |
ThermoFisher |
24612 |
|
Deposited Data |
|
Structure of drosophila Unr CSD12 |
This paper |
PDB: 6Y6M
|
Structure of drosophila Unr CSD456 |
This paper |
PDB: 6Y6E
|
Structure of drosophila Unr CSD78 |
This paper |
PDB: 6Y4H
|
Structure of drosophila Unr CSD9 |
This paper |
PDB: 6Y96
|
NMR data of drosophila Unr CSD12 |
This paper |
BMRB: 34493 |
NMR data of drosophila Unr CSD456 |
This paper |
BMRB: 28088 |
NMR data of drosophila Unr CSD78 |
This paper |
BMRB: 34492 |
NMR data of drosophila Unr CSD789 |
This paper |
BMRB: 28086 |
NMR data of drosophila Unr CSD9 |
This paper |
BMRB: 34498 |
SAXS data of drosophila Unr CSD456 |
This paper |
SASBDB: SASDHJ7 |
SAXS data of drosophila Unr CSD78 |
This paper |
SASBDB: SASDHK7 |
Proteomics data |
This paper |
ProteomeXchange: PXD018115
|
RIP-seq data |
This paper |
https://www.ebi.ac.uk/ena: PRJEB37467 |
|
Experimental Models: Cell Lines |
|
Drosophila melanogaster: Schneider’s Drosophila Line 2 |
ATCC |
ATCC CRL-1963 |
|
Oligonucleotides |
|
Primers for RNAi and qPCR primers, see Table S5
|
Specific for each primer, check Table S5
|
N/A |
|
Software and Algorithms |
|
XDS |
Kabsch, 2010 |
SBGrid Consortium |
Phenix |
Liebschner et al., 2019 |
SBGrid Consortium |
Coot |
Emsley et al., 2010 |
SBGrid Consortium |
NMRPipe |
Delaglio et al., 1995 |
SBGrid Consortium |
Cara |
Keller, 2004 |
SBGrid Consortium |
CYANA 3.98 |
Güntert and Buchner, 2015 |
http://www.cyana.org/wiki/index.php/Main_Page |
Talos |
Shen et al., 2009 |
SBGrid Consortium |
ARIA 1.2 |
Rieping et al., 2007 |
SBGrid Consortium |
PROCHECK |
Laskowski et al., 1996 |
SBGrid Consortium |
WHATCHECK |
Hooft et al., 1996 |
SBGrid Consortium |
NMRFAM-Sparky |
Lee et al., 2015 |
SBGrid Consortium |
CcpNMR |
Vranken et al., 2005 |
SBGrid Consortium |
PINT |
Niklasson et al., 2017 |
https://pint-nmr.github.io/PINT/ |
ATSAS 2.7.1 |
Franke et al., 2017 |
SBGrid Consortium |
STAR aligner 2.7.1a |
Dobin et al., 2013 |
https://github.com/alexdobin/STAR |
RStudio |
RStudio |
SBGrid Consortium |
Inkscape |
Inkscape developers, GNU |
https://inkscape.org/ |
GraphPad Prism 5 |
GraphPad software Inc. |
https://www.graphpad.com/scientific-software/prism/ |
PyMol 1.8.2.3 |
Schrödinger, LLC |
https://pymol.org/2/ |
Gnuplot 4 |
Gnuplot |
http://www.gnuplot.info |