REAGENT or RESOURCE	SOURCE	IDENTIFIER
Antibodies
α-Beta Actin	Sigma Aldrich	A5441; RRID: AB_476744
α-RTN3	Santacruz	sc374599; RRID: AB_10986405
α-PDI	Thermofisher	P7496; RRID: AB_261952
α-DENV NS3	Genetex	GTX629477; RRID: AB_2801283
α-DENV NS4B	Genetex	GTX124250; RRID: AB_11176998
α-dsRNA	Scicons	10010500; RRID: AB_2651015
DENV NS1	Welsch et al., 2009	NA
DENV NS3	Miller et al., 2006	NA
DENV NS4B	Miller et al., 2006	NA
DENV NS5	Miller et al., 2006	NA
ZIKV NS2B	Genetex	GTX133318
ZIKV NS1	Genetex	GTX634158
ZIKV NS4B	Genetex	GTX133321
ZIKV NS5	Genetex	GTX133327; RRID: AB_2800435
Goat anti–rabbit IgG-HRP	Sigma Aldrich	A6154; RRID: AB_258284
Goat anti–mouse IgG-HRP	Sigma Aldrich	A4416; RRID: AB_258167
Alexa Fluor 488 donkey anti-mouse IgG	Thermofisher	A-21202; RRID: AB_141607
Alexa Fluor 488 donkey anti-mouse IgG2a	Thermofisher	A-21131; RRID: AB_2535771
Alexa Fluor 568 donkey anti-rabbit IgG	Thermofisher	A-10042; RRID: AB_2534017
Alexa Fluor 568 donkey anti-mouse IgG1	Thermofisher	A-21124; RRID: AB_2535766
Alexa Fluor 647 donkey anti-rabbit IgG	Thermofisher	A −31573; RRID: AB_2536183
Virus Strains
DENV isolate 16681, synthetic genome	Fischl and Bartenschlager, 2013	N/A
ZIKV strain H/PF/2013	European Virus Archive (EVAg, France)	N/A
Chemicals
ProLong® Gold Antifade Reagent	Cell Signaling Technology	#9071
DAPI-Fluoromount-G	Southern BioTech	Cat.#0100-20
Transit LT-1 transfection reagent	Mirus	Cat.#MIR2304
Experimental Models: Cell Lines
Huh7/Lunet T7	Appel et al., 2005	N/A
Oligonucleotides
Please see Table S1 for primers used in construct creation	This study	N/A
Recombinant DNA
pFK_sgDVR2A	Fischl and Bartenschlager, 2013	N/A
pFK_sgDVR2A GND	Fischl and Bartenschlager, 2013	N/A
Recombinant DNA (created using DENV isolate 16681 genomic sequence)
pTM/NS1-5 (pTM/NS1-5)	This Study	N/A
pTM-211 (Δ 5′ SLAB/CS)	This Study	N/A
pSM1 (5′ WT)	This Study	N/A
pSM2 (Δ 5′ SLA)	This Study	N/A
pSM3 (Δ 5′ SLAB)	This Study	N/A
pSM3 GND (Δ 5′ SLABGND)	This Study	N/A
pSM2 GND (Δ 5′ SLAGND)	This Study	N/A
pSM3 Δ 3′ UAR (Δ 5′ SLAB-Δ 3′ UAR)	This Study	N/A
pSM3 Δ 3′ sHP (Δ 5′ SLAB-Δ3′ sHP)	This Study	N/A
pSM3 Δ 3′ SL (Δ 5′ SLAB-Δ 3′ SL)	This Study	N/A
pSM3 WT-Rib (3′ WT-Rib)	This Study	N/A
pSM3 3′ Δ SL-Rib (Δ 3′ SL-Rib)	This Study	N/A
pSM3 3′ SL [ZIKV]-Rib (3′ SL Chim-Rib)	This Study	N/A
Recombinant DNA (created using ZIKV strain H/PF/2013 genomic sequence)
Δ 5′ SLAB	This Study	N/A
5′ WTGAA	This Study	N/A
Δ 5′ SLABGAA	This Study	N/A
Δ 5′ SLAB-Δ 3′ UAR	This Study	N/A
Δ 5′ SLAB-Δ 3′ sHP	This Study	N/A
Δ 5′ SLAB-Δ 3′ SL	This Study	N/A
Δ 3′ sHP-SL, Δ 3′ CS-SL	This Study	N/A
Δ 3′ complete, 3′ WT-Rib	This Study	N/A
Software and Algorithms
ImageJ (FiJi)	Schindelin et al., 2012	https://imagej.nih.gov/ij/
Adobe Photoshop 5.5	San Jose, CA, USA	N/A
GraphPad Prism 5.0	LaJolla, CA, USA	N/A