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. 2023 May 5;4(2):102326. doi: 10.1016/j.xpro.2023.102326
REAGENT or RESOURCE SOURCE IDENTIFIER
Bacterial strains

XL10-Gold Ultracompetent Cells Agilent Technologies 200317
BL21(DE3) Competent Cells Agilent Technologies 200131

Chemicals, peptides, and recombinant proteins

Ulp1 Sumo Protease This work Described above
Ampicillin sodium salt Sigma-Aldrich A9518
Dithiothreitol (DTT) Sigma-Aldrich D9779
Isopropyl-β-D-thiogalactopyranoside (IPTG) Sigma-Aldrich I6758
Tris(2-carboxyethyl)phosphine hydrochloride (TCEP) Sigma-Aldrich C4706
Super Optimal Broth with catabolite repression (SOC) medium Sigma-Aldrich S1797
LB broth powder (Miller) Sigma-Aldrich L3522
Super broth powder Research Products International S33050
Agar Sigma-Aldrich A1296
Dnase I Sigma-Aldrich DN25
Magnesium chloride (MgCl2) Sigma-Aldrich M8266
Sodium chloride (NaCl) Sigma-Aldrich S9888
Trizma base (Tris) Sigma-Aldrich T6066
Imidazole Sigma-Aldrich I2399
Ethylenediaminetetraacetic acid (EDTA) Sigma-Aldrich E9884
Iron(III) chloride hexahydrate (FeCl3 × 6H2O) Sigma-Aldrich 236489
Zinc sulfate heptahydrate (ZnSO4 × 7H2O) Sigma-Aldrich 221376
Cobalt(II) chloride hexahydrate (CoCl2 × 6H2O) Sigma-Aldrich 255599
Sodium molybdate dihydrate (Na2MoO4 × 2H2O) Sigma-Aldrich M1003
Copper(II) sulfate pentahydrate (CuSO4 × 5H2O) Sigma-Aldrich 209198
Boric acid (H3BO3) Sigma-Aldrich B0394
Manganese(II) sulfate (MnSO4) Sigma-Aldrich M7506
Hydrochloric acid (HCl) Sigma-Aldrich XX0628
Sodium phosphate monobasic (NaH2PO4) Sigma-Aldrich 74092
Potassium phosphate monobasic (KH2PO4) J.T.Baker 3246-05
Potassium phosphate dibasic (K2HPO4) J.T.Baker 3252-01
Sodium citrate dihydrate (NaC6H5O7 × 2H2O) J.T.Baker 3646-01
Magnesium sulfate heptahydrate (MgSO4 × 7H2O) J.T.Baker 2500-01
MEM Vitamin Solution (100×) Sigma-Aldrich M6895
15N-ammonium sulfate (15NH4)2SO4 Sigma-Aldrich 299286
12C D-Glucose Sigma-Aldrich G7520
D-Glucose (U-13C6,99 %; 1,2,3,4,5,6,6-D7, 97–98 %) Cambridge Isotope CLM-1396-5
Deuterium oxide (2H2O) CortecNet CD5251P1000
Nickel(II) sulfate (NiSO4) Sigma-Aldrich 656895

Critical commercial assays

NucleoSpin Plasmid NoLid Macherey-Nagel 740499.50
Dabsyl-KTSAVLQ/SGFRKME-EDANS GenScript Inc Custom Synthesis
5(2Aminoethylamino)1Napthalene sulfonic acid (EDANS) MedChemExpress ICN15474001

Recombinant DNA

pGTM_CoV2_NSP5_004_SUMO This work – available from Addgene AddGene ID: 190062
pGTM_CoV2_NSP5_C145A_001_SUMO This work – available from Addgene AddGene ID: 192349
pGTM_YR375_SUMO_Protease_001 This work – available from Addgene AddGene ID: 190063

Other

Sonicator 3000 Misonix S-3000/R2225
Amicon Ultra Centrifugal Filter Unit (MWCO 10000 Da) Merck Millipore UFC90110
5-mL HiTrap Chelating HP Cytiva 17040901
HiPrep 26/10 Desalting Cytiva 17508701
HiLoad® 16/60 Superdex® 75 Cytiva 28988946/17104401
Infinite M1000 PRO microplate reader TECAN 30063849/140100256
Jupiter C4 column Phenomenex 00F-4167-B0
ESI-Q-TOF spectrometer Xevo, Waters N/A
Shigemi 5 mm Symmetrical NMR microtube Shigemi, INC BMS-005B
Bruker INOVA 700 MHz NMR spectrometer Bruker N/A
EasyXtal 15-well crystallization plate NeXtal 132006
132006
Protein Crystallization Cabinet RUMED PKS-E100
Magnetic Cryo Vials Molecular Dimensions MD7-402
SPINE Sample Changer Basket Molecular Dimensions MD7-510
Magnetic Mounted LithoLoops (0.20 mm) Molecular Dimensions MD7-136
Magnetic Cryo wand Molecular Dimensions MD7-411

Software and algorithms

NMRPipe Delaglio, F. et al. (1995)10 https://www.ibbr.umd.edu/nmrpipe/
POKY Lee, W. et al. (2021)11 https://sites.google.com/view/pokynmr
NMRFAM-SPARKY Lee, W. et al. (2015)12 https://nmrfam.wisc.edu/nmrfam-sparky-distribution/
MXCuBE Gabaldinho, J. et al. (2010)13
Oscarsson, M. et al. (2019)14
https://mxcube.github.io/mxcube/
XDS Kabsch, W. (2010)15 https://strucbio.biologie.uni-konstanz.de/xdswiki/index.php/Xds
CCP4 Winn, M. D. et al. (2011)16 https://www.ccp4.ac.uk/
AIMLESS Evans, P. R. and Murshudov, G. N. (2013)17 https://www.ccp4.ac.uk/html/aimless.html
REFMAC Murshudov, G. N. et al. (2011)18 https://www.ccp4.ac.uk/html/refmac5/description.html
COOT Emsley P. and Cowtan K. (2004)19 https://www2.mrc-lmb.cam.ac.uk/personal/pemsley/coot/
Magellan™ v 7.2 https://lifesciences.tecan.com/software-magellan
GraphPad Prism https://www.graphpad.com
Microsoft Excel https://www.microsoft.com/en-us/microsoft-365/excel