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. 2023 May 23;19(7):e11164. doi: 10.15252/msb.202211164
Reagent/Resource Reference or Source Identifier or Catalog Number
Experimental Models
Escherichia coli BL21(DE3) gold Agilent Technology Cat. 230132
Escherichia coli OmniMAX ThermoFisher Cat. C854003
Escherichia coli SS320 Lucigen Cat. 60512‐1
M13KO5 helper phage ThermoFisher Cat. 18311019
Flp‐In T‐RExHeLa cells Stephen Taylor
Recombinant DNA
pETM33 EMBL
pETM41 EMBL
Phagemid p8 Sidhu lab (PMID: 25879139)
HURP cDNA CPR clone resource
YFP pcDNA/FRT/TO Nilsson lab – cloning YFP with HindIII in pcDNA5/FRT/TO
Antibodies
HRP‐conjugated anti‐M13 bacteriophage monoclonal mouse antibody Sino Biological Inc Cat. 11973‐MM05T‐H/RRID: AB_2857928
anti‐CHC polyclonal rabbit antibody Bethyl Laboratories Cat. A304‐743A‐M/RRID: AB_2782136
anti‐HURP polyclonal rabbit antibody Bethyl Laboratories Cat. A300‐852‐M/RRID: AB_2779502
anti‐GFP (mouse/rabbit) antibody rabbit‐ anti GFP, produced in‐house or mouse anti‐GFP from Roche Cat. 11814460001/RRID: AB_390913 for Roche
IRDye® 800CW Goat anti‐Mouse IgG Secondary Antibody LI‐COR Cat. 926‐32210/RRID: AB_621842
IRDye® 680RD Goat anti‐Rabbit IgG Secondary Antibody LI‐COR Cat. 926‐68071/RRID:vAB_10956166
Oligonucleotides and sequence‐based reagents
RNA oligos/Ambion™ Silencer™ Select Pre‐Designed siRNA Thermo Fisher s18913
Oligonucleotides PM_HD2 CustomArrray
HURP_fwd_in_YFP GATCGGATCCATGTCTTCATCACATTTTGCC
HURP_rev_in_YFP_wt GATCGCGGCCGCTCAAAATTCTCCTGGTTGTAGAGG
HURP_rev_in_YFP_delta835‐846 GATCGCGGCCGCTCAGTTACCACCAAAAGAAATGTGTC
HURP_fwd_S839A GGTAACCTGATTACTTTTGCACCTCTACAACCAGGAG
HURP_rev_S839A CTCCTGGTTGTAGAGGTGCAAAAGTAATCAGGTTACC
SiRes_HURP_fwd_483 GATAACGAGAGTGACGTGAGGGCGATCCGACCTGGTCC
SiRes_HURP_rev_483 GGACCAGGTCGGATCGCCCTCACGTCACTCTCGTTATC
SiRes_HURP_fwd_484 ATGCCGGTCCTCAAAACACAAAGAGTGAACATGTGAAG
Sires_HURP_rev_484 CTTCACATGTTCACTCTTTGTGTTTTGAGGACCGGCAT
Chemicals, enzymes and other reagents
Zeocin Invitrogen Cat. R25001
Blasticidin Invitrogen Cat. R21001
Doxycyclin Clontech Labs 631311 – 5g
Nocodazole Sigma Cat. M1404
Lipofectamine™ RNAiMAX Transfection Reagent Invitrogen Cat. 13778‐150
Hygromycin B Invitrogen Cat. 10687010
0.25 % Trypsin/EDTA ThermoFisher Cat. 25200‐056
DMEM GlutaMax 4.5 g/l D‐Glucose, Pyruvate Thermo Fisher Cat. 31966047
OPTIMEM medium Invitrogen Cat. 51985026
GFP‐Trap Agarose YChromotek Cat. GTA‐20
PhosSTOP Easypack Roche Cat. 04906837001
Thymidine Sigma Cat. T1895
IGEPAL CA‐630 Sigma Cat. I8896
Protein Assay Dye Reagent Concentrate Bio‐Rad Cat. 5000006
NuPAGE LDS Sample buffer (4×) Novex Cat. NP0008
MOPS SDS Running Buffer (20×) Invitrogen Cat. NP0001‐02
cOmplete™ EDTA‐free Protease Inhibitor Cocktail Roche Cat. 4693132001
T4 polynucleotide kinase Thermo Scientific Cat. EK0031
T7 DNA polymerase Thermo Scientific Cat. EP0081
T4 DNA ligase Thermo Scientific Cat. EL0014
50 bp marker Thermo Scientific Cat. 10416014
Mag‐bind Total Pure NGS Omega Bio‐tek Cat. M1378‐01
QIAquick Gel extraction Kit Qiagen Cat. 28706X4
Quant‐iT PicoGreen dsDNA Assay Kit Molecular probes by Life technologies Cat. P7589
TMB substrate Seracare KPL Cat. 5120‐0047
QIAquick Nucleotide Removal Kit Qiagen Cat. 28306
GSH Sepharose 4 Fast Flow Media Cytiva Cat. 17513201
Ni Sepharose excel Cytiva Cat. 17371201
FastDigest SmaI ThermoFisher Cat. FD0663
Affinity chromatography columns, HiTrap™ Benzamidine FF Cytiva Cat. 17514302
Thrombin Cytiva Cat. 27‐0846‐01
Thermo Scientific™ Lysozyme ThermoFisher Cat. 89833
GelRed Biotium Cat. 41003‐T
Thermo Scientific™ Phusion High‐Fidelity PCR Master Mix with HF Buffer ThermoFisher Cat. F631L
QIAquick PCR Purification Kit Qiagen Cat. 28104
jetOPTIMUS® DNA transfection reagant and buffer Polyplus Cat. 101000006
96‐well Flat‐bottom Immunosorp MaxiSorp plates Nunc, Roskilde, Denmark Cat. 439454
384‐well Flat‐bottom Immunosorp MaxiSorp plates Nunc, Roskilde, Denmark Cat. 464718
96‐well half area black Flat‐bottom Nonbinding surface plates Corning, USA Cat. 3993
100 × 20 cm Greiner Cellstar Cell Culture Dish Greiner Bio‐One Cat. 664160
145 × 20 cm Greiner Cellstar Cell Culture Dish Greiner Bio‐One Cat. 639160
μ‐slide 8 well Ibidi Cat. 80826
Software
GraphPad Prism version 9.3.1 for MacOS GraphPad Software, San Diego, CA, USA, www.graphpad.com
ImageJ https://imagej.nih.gov/ij/
PyMOL Version 2.1.1 New York, NY, USA Schrodinger LLC
DeltaVision Softworx Software DeltaVision
Python version 3 Van Rossum and Drake (2009)
Pandas McKinney (2010)
Matplotlib Hunter (2007)
Seaborn Waskom et al (2021)
Inkscape Inkscape Project (2020). Inkscape. Retrieved from https://inkscape.org
Other
iD5 Molecular Devices
iTC200 Malvern
PCR machine Biometra TGradient
Illumina MiSeq v3 run, 1 × 150 bp read setup, 20% PhiX NGS‐NGI SciLifeLab facility
Nanodrop ND‐1000 Thermo Fisher
DeltaVision Microscope DeltaVision