| Antibodies |
|
| β-actin monoclonal antibody |
Invitrogen |
Cat# AM4302; RRID: AB_437394 |
| SARNP antibody |
Invitrogen |
Cat# PA5–56586; RRID:AB_2646955 |
| SC35 monoclonal antibody |
Sigma Aldrich |
Cat# SAB4200725 |
| SON polyclonal antibody |
Genetex |
Cat# GTX129778; RRID:AB_2886086 |
|
| Bacterial and virus strains |
|
| E. coli strain Rosetta (DE3) |
Sigma-Aldrich |
Cat# 70954 |
|
| Chemicals, peptides, and recombinant proteins |
|
| Aprotinin |
Santa Cruz |
Cat# sc-3595A |
| DMEM (Dulbecco’s Modified Eagle Medium) |
Gibco |
Cat# 11965092 |
| FBS |
Sigma-Aldrich |
Cat# F4135 |
| Glutathione Sepharose 4B resin |
Cytiva |
Cat# 17075605 |
| Ni Sepharose resin 6FF |
Cytiva |
Cat# 17531802 |
| PEG4000 |
Hampton Research |
Cat# HR2–605 |
| SUPERase•In RNase Inhibitor |
Thermo Fisher |
Cat# AM2694 |
| TCEP |
Hampton Research |
Cat# HR2–801 |
|
| Critical commercial assays |
|
| NEBuilder HiFi DNA Assembly |
NEB |
Cat# E2621S |
| RED-tris-NTA 2ND generation |
Nanotemper |
Cat# MOL018 |
| RNeasy Plus Mini Kit |
Qiagen |
Cat# 74034 |
|
| Deposited data |
|
| Structure of the DDX39B-Tho1-RNA complex |
This paper |
PDB: 8ENK |
| RNA sequencing data |
This paper |
BioProject: PRJNA893026 |
|
| Experimental models: Cell lines |
|
| Human lung adenocarcinoma epithelial cells (A549) |
ATCC |
CCL-185 |
|
| Oligonucleotides |
|
| Human SARNP siRNA |
Dharmacon |
Cat# L-015061–02-0005 |
| Poly(U) 15-mer RNA with Alexa 488 on the 5' end |
IDT |
N/A |
| Poly(U) 15-mer RNA |
IDT |
N/A |
|
| Recombinant DNA |
|
| pGEX-SARNP(1–210)-His |
This paper |
N/A |
| pGEX-SARNP(1–106)-His |
This paper |
N/A |
| pGEX-SARNP(107–210)-His |
This paper |
N/A |
| pGEX-SARNP(1–210)-His-(R153A/F157A/R177A/F181A/R203A/F207A) |
This paper |
N/A |
| pGEX-SARNP(1–210)-His-(R106A/F110A/R123A/F127A/R153A/F157A/R177A/F181A/R203A/F207A) |
This paper |
N/A |
| pGEX-DDX39B(44–428) |
This paper |
N/A |
| pGEX-Sub2(1–446) |
This paper |
N/A |
| pGEX-Tho1(1–218) |
This paper |
N/A |
| pGEX-Tho1(123–178) |
This paper |
N/A |
| pGEX-Tho1-(R139A/F143A/R159A/F163A) |
This paper |
N/A |
| pGEX-DDX39B(259–428) |
This paper |
N/A |
| pGEX-DDX39B(259–428)-D283R |
This paper |
N/A |
| pProEX-DDX39B(1–428) |
This paper |
N/A |
|
| Software and algorithms |
|
| Coot |
Emsley et al.64
|
https://www2.mrc-lmb.cam.ac.uk/personal/pemsley/coot
|
| ESPript 3.0 web server |
Robert and Gouet65
|
https://espript.ibcp.fr
|
| HKL2000 |
Otwinowski and Minor66
|
https://hkl-xray.com/hkl-2000
|
| ImageJ |
Schneider et al.67
|
https://imagej.nih.gov/ij
|
| MO. affinity analysis v2.3 |
NanoTemper Technologies |
https://www.nanotempertech.com
|
| Phenix |
Afonine et al.68
|
https://www.phenix-online.org
|
| Prism 9 |
GraphPad |
https://www.graphpad.com/scientific-software/prism
|
| PyMOL |
Schrödinger, LLC |
https://pymol.org/2/
|
| R 4.0.2 |
The R Fouondation |
https://www.R-project.org
|
| WebLogo |
Crooks et al.69
|
https://weblogo.berkeley.edu/
|
