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. Author manuscript; available in PMC: 2020 Dec 3.
Published in final edited form as: Structure. 2019 Oct 31;27(12):1771–1781.e5. doi: 10.1016/j.str.2019.10.006

KEY RESOURCES TABLE

REAGENT or RESOURCE SOURCE IDENTIFIER
Bacterial and Virus Strains
NEB DH5α competent E.coli NEB cat#C2987
BL21(DE3) competent E.coli NEB cat#C2527
Chemicals, Peptides, and Recombinant Proteins
m7GpppG NEB cat#S1405S
Sypro Orange q Thermo Fischer Scientific cat#S6650
T4 PNK NEB cat#M0201
vaccinia capping enzyme NEB cat#M2080
α-32P-GTP Perkin Elmer cat#BLU506H250UC
His-Pur NiNTA Thermo Fischer Scientific cat#88222
HiTrap Q GE cat#17115401
HiTrap SP GE cat#17115201
HiTrap Butyl GE cat#28411005
10K MWCO Millipore cat#C7715
calf intestinal phosphatase Roche cat#11097075001
Deposited Data
Apo X-ray crystal structure of DM15 (Lahr et al., 2015) PDBID: 4ZC4
F844YR847E DM15 X-ray crystal structure This study PDBID: 6PW3
Oligonucleotides
Forward and reverse primers for K924D
Mutation of LARP1 DM15
5’CTGGGCCTTCTTGAAA TATTCCGACGCCAAAAAT TTGGAC3’
5’GTCCAAATTTTTGGCGTC GGAATATTTCAAGAAGGC CCAG3’
Sigma N/A
Forward and reverse primers for K924A
Mutation of LARP1 DM15
5’CTGGGCCTTCTTGAAATATTCCGCAGCCAAAAAT TTGGAC3’
5’GTCCAAATTTTTGGCTGC GGAATATTTCAAGAAGGC CCAG3’
Sigma N/A
Forward and reverse primers for K921A Mutation of LARP1 DM15
5’caaatttttggctttggaatatgccaagaaggcccagaacttctcc 3’
5’ggagaagttctgggccttcttggcatattccaaagccaaaaatttg3’
Sigma N/A
Forward and reverse primers for K815A Mutation of LARP1 DM15
5’ cacaacacgtctaccatgcgtatcgtaggcgctgcc 3’
5’ ggcagcgcctacgatacgcatggtagacgtgttgtg 3’
Sigma N/A
Forward and reverse primers for F844YR847E
Mutation of LARP1 DM15
R847E 5’ catctttttgttgaagtgatcctcgaggaagaaggaccagaagcg 3’
5’ cgcttctggtccttcttcctcgaggatcacttcaacaaaaagatg 3’
F844YR847E
5’catacatctttttgttgaagtgatcctcgaggaaataggaccagaagcggaagagtgtgt 3’
5’acacactcttccgcttctggtcctatttcctcgaggatcacttcaacaaaaagatgtatg 3’
Sigma N/A
Splint adapter 5’ CTTGAAGCAGCTGAACGCCTCCGAGGCGCCACGGAAAAGAGG 3’ Sigma N/A
Recombinant DNA
human LARP1 isoform 2 ThermoFisher BC033856
Software and Algorithms
PDB2PQR 2.1.1 (Dolinsky et al., 2007; Dolinsky et al., 2004) http://nbcr-222.ucsd.edu/pdb2pqr_2.1.1/
Ambertools18 (Case et al., 2017) http://ambermd.org/AmberTools.php
NAMD 2.9 (Kale et al., 1999; Phillips et al., 2005) http://www.ks.uiuc.edu/Research/namd/
MDAnalysis 0.16.2 (Michaud-Agrawal et al., 2011) https://www.mdanalysis.org/
FTMap (Kozakov et al., 2015; Ngan et al., 2012) https://ftmap.bu.edu/
VMD (Humphrey et al., 1996) https://www.ks.uiuc.edu/Research/vmd/
Phenix 1.13–2998 (Adams et al., 2010) https://www.phenix-online.org/
POVME 2.0 (Durrant et al., 2014) rocce-vm0.ucsd.edu/data/sw/hosted/POVME/
QuantStudio™ Design & Analysis Software V 8.1.0.0 ThermoFisher Scientific https://www.thermofisher.com/us/en/home/technical-resources/software-downloads/ab-quantstudio-3-and-5-real-time-pcr-system.html
PyMOL Molecular Graphics System, Version 1.8.6.0. (DeLano, 2002) https://pymol.org/2/
GraphPad Prism 7.0 GraphPad Software Prism - graphpad.com
SPSS Statistics V.25 IBM https://www.ibm.com/products/spss-statistics