REAGENT or RESOURCE | SOURCE | IDENTIFIER |
---|---|---|
Antibodies | ||
Monoclonal ANTI-FLAG M2-HRP antibody | Sigma-Aldrich | Cat# A8592; RRID: AB_439702 |
Chemicals, peptides, and recombinant proteins | ||
TRIS | SRL | Cat# 71033 |
HEPES | SRL | Cat# 63732 |
NaCl | SRL | Cat# 41721 |
EDTA | SRL | Cat# 12070 |
Phenylmethanesulfonyl Fluoride (PMSF) | SRL | Cat# 84375 (84375) |
Benzamidine Hydrochloride | SRL | Cat# 93014 (0248255) |
Lysozyme | SRL | Cat# 45822 |
Glycerol | SRL | Cat# 77453 |
Dithiothreitol | HiMedia | Cat# MB070 |
Lauryl Maltose Neopentyl Glycol (MNG) | Anatrace | Cat# NG310, CAS no.1257852-96-2 |
Paraformaldehyde (PFA) | Sigma Aldrich | Cat# P6148, CAS no. 30525-89-4 |
Poly-D-lysine | Sigma Aldrich | Cat# P0899 |
TMB (Tetramethylbenzidine) | Thermo Fisher Scientific | Cat# 34028 |
Janus Green B | Sigma Aldrich | Cat# 201677 |
PEI (Polyethylenimine) | Polysciences | Cat# 23966 |
Bovine Serum Albumin, BSA | SRL | Cat# 83803 (0140105) |
HBSS - Hank’s Balanced Salt Solution | Thermo Fisher Scientific | Cat# 14065 |
GIBCO Fetal Bovine Serum | Thermo Fisher Scientific | Cat# 10270-106 |
DMEM | Cellclone | Cat# CC3004 |
Phosphate-buffered saline (PBS) | Sigma Aldrich | Cat# D1283 |
GIBCO Penicillin-Streptomycin | Thermo Fisher Scientific | Cat# 15140122 |
Coelenterazine | Goldbio | Cat# CZ05 |
Glyco-diosgenin (GDN) | Anatrace | GDN101 |
Cholesteryl Hemisuccinate | Sigma | C6512 |
Coomassie briliiant Blue | SRL | Cat# 64222 |
Uranyl formate | Polysciences | Cat# 24762-1 |
Recombinant rat β-arrestin1 | Purified | N/A |
Recombinant bovine β-arrestin2 | Purified | N/A |
C5aR1pp1 | Chemically synthesized | N/A |
C5aR1pp2 | Chemically synthesized | N/A |
C5aR1pp3 | Chemically synthesized | N/A |
V2Rpp | Chemically synthesized | N/A |
CXCR4pp1 | Chemically synthesized | N/A |
CXCR4pp2 | Chemically synthesized | N/A |
CXCR4pp3 | Chemically synthesized | N/A |
CXCR4pp4 | Chemically synthesized | N/A |
Recombinant human C5a | Purified | N/A |
Bradykinin | Genscript | N/A |
Arginine Vasopressin Peptide (AVP) | Genscript | N/A |
Uranyl formate | Polysciences | Cat# 24762-1 |
Formvar/carbon coated 300 mesh copper grids |
PELCO (Ted Pella) | Cat# 01753-F |
Critical commercial assays | ||
Site directed mutagenesis kit | NEB | Cat# E0554 |
NanoBiT assay | Promega | N/A |
Deposited data | ||
C5aR1pp-βarr1-Fab30 | This study | PDB: 8GO8, EMD-34173 |
V2Rpp-βarr2-Fab30 | This study | PDB: 8GOC, EMD-34175 |
C5aR1pp-βarr2-Fab30 | This study | PDB: 8GOO, EMD-34178 |
CXCR4pp-βarr1-Fab30 | This study | PDB: 8GP3, EMD-34188 |
C5aR1pp-βarr1-Fab30-Local-refine | This study | PDB: 8I0N, EMD-35104 |
V2Rpp-βarr2-Fab30-Local-refine | This study | PDB: 8I10, EMD-35115 |
C5aR1pp-βarr2-Fab30-Local-refine | This study | PDB: 8I0Z, EMD-35114 |
CXCR4pp-βarr1-Fab30-Local-refine | This study | PDB: 8I0Q, EMD-35106 |
Experimental models: Cell lines | ||
Human: HEK293 | ATCC | Cat# CRL-3216 |
Oligonucleotides | ||
C5aR1_R-insertion SDM primer Forward: CGCTCCACAGTGGACACTATGG |
This study | N/A |
C5aR1_R-insertion SDM primer Reverse: GCGCGTGAATGACTTGCT |
This study | N/A |
B2Rmut Forward: AACACGGACCTCCATCTCCGTG |
This study | N/A |
B2RmutReverse GTCATGGAGTTCTCCATCTGAATGGG |
This study | N/A |
M2Rmut_Forward: AAGTCTACTTCACTGGGCCAC |
This study | N/A |
M2Rmut_Reverse: GACGGTGTTTTCGTCCTG |
This study | N/A |
β-arrestin2 Double mutant (βarr2DM) Fw: ggcgAACAACCGTGAAAAACGTG |
This study | N/A |
β-arrestin2 Double mutant (βarr2DM) Rv: aggaaCGGGGTGATGGTGTAAAC |
This study | N/A |
Recombinant DNA | ||
PcDNA_3.1 (empty vector) | Dr. Arun K Shukla | N/A |
pcDNA3.1_V2R-WT | Dr. Arun K Shukla | N/A |
pcDNA3.1_C5aR1-WT | Dr. Arun K Shukla | N/A |
pcDNA3.1_CXCR3-WT | Dr. Arun K Shukla | N/A |
pcDNA3.1_CXCR7-WT | Dr. Arun K Shukla | N/A |
pcDNA3.1_B2R-WT | Dr. Arun K Shukla | N/A |
pcDNA3.1_M2R-WT | Dr. Arun K Shukla | N/A |
pcDNA3.1_C5aR1-mutTRRST | This study | N/A |
pcDNA3.1_B2R-mutΔG368/L370T | Dr. Arun K Shukla | N/A |
pcDNA3.1_M2R-mutTVKST | This study | N/A |
pCAGGS_V2R-WT-SmBiT | Dr. Arun K Shukla | N/A |
pCAGGS _C5aR1-SmBiT | Dr. Arun K Shukla | N/A |
pCAGGS_SmBiT-βarr2WT | Dr. Asuka Inoue | N/A |
pCAGGS_SmBiT-βarr2DM | This study | N/A |
pCAGGS_LgBiT-βarr2WT | Dr. Asuka Inoue | N/A |
pCAGGS_LgBiT-βarr2DM | This study | N/A |
pCAGGS_LgBiT-FYVE | Dr. Asuka Inoue | N/A |
pCAGGS_LgBiT-Ib30 | Dr. Asuka Inoue | N/A |
Software and algorithms | ||
UCSF Chimera | Pettersen et al.64 | https://www.cgl.ucsf.edu/chimera/ |
UCSF Chimera X | Pettersen et al.65 | https://www.rbvi.ucsf.edu/chimerax/ |
COOT | Emsley et al.66 | https://www2.mrc-lmb.cam.ac.uk/personal/pemsley/coot/ |
cryoSPARC | Punjani et al.67 | https://cryosparc.com/ |
PDBsum | Laskowski et al.68 | http://www.ebi.ac.uk/thornton-srv/databases/pdbsum/ |
Phenix | Liebschner et al.69 | https://www.phenix-online.org/ |
PyMol | Schrodinger | https://pymol.org/2/ |
Prism 8 | GraphPad Software | https://www.graphpad.com/scientific-software/prism/ |
Relion3.1.2 | Zivanov et al.70 | https://www3.mrc-lmb.cam.ac.uk/relion/index.php?title=Main_Page |
SerialEM | Mastronarde71 | https://bio3d.colorado.edu/SerialEM/ |
Graphpad Prism 9 | GraphPad Software, San Diego, California USA | https://www.graphpad.com/scientific-software/prism/ |
ImageJ | Schneider et al.72 | https://imagej.nih.gov/ij/download.html |