KEY RESOURCES TABLE
| REAGENT or RESOURCE | SOURCE | IDENTIFIER |
|---|---|---|
| Antibodies | ||
| anti-NP rabbit polyclonal | GeneTex | Cat#GTX134031; RRID:AB_2887180 |
| anti-VP24 mouse monoclonal | Kawaoka Lab (University of Wisconsin, Madison) | clone mouse/21.5.2.5 |
| anti-VP35 rabbit polyclonal | GeneTex | Cat#GTX134032; RRID:AB_2887181 |
| anti-VP35 mouse monoclonal | Kerafast | Cat#EMS702 |
| anti-VP30 rabbit polyclonal | Kawaoka Lab (University of Wisconsin, Madison) | N/A |
| anti-VP40 mouse monoclonal, VP40-2 | Saphire Lab | N/A |
| Alexa 488-anti-mouse IgG | Thermo Fisher Scientific | Cat#A32723; RRID:AB_2633275 |
| Alexa 488-anti-rabbit IgG | Thermo Fisher Scientific | Cat#A11008; RRID:AB_143165 |
| Alexa 647-anti-rabbit IgG | Thermo Fisher Scientific | Cat#A32733; RRID:AB_2633282 |
| Alexa 568 anti-mouse IgG | Thermo Fisher Scientific | Cat#A11031; RRID:AB_144696 |
| Bacterial and virus strains | ||
| EBOV-GFP-ΔVP30 | Kawaoka Lab (University of Wisconsin, Madison) Feldmann et.al34 | N/A |
| Biological samples | ||
| Chemicals, peptides, and recombinant proteins | ||
| bovine serum albumin | Sigma | Cat#7906 |
| BSA Gold Tracer EM-grade 10 nm | EMS | Cat#25487 |
| ProLong™ Gold Antifade Mountant | Invitrogen | Cat#P36930 |
| Durcupan | Sigma | Cat#44610 |
| poly-lysine solution | Sigma | Cat#4707 |
| Critical commercial assays | ||
| Deposited data | ||
| in-virion Ebola virus nucleocapsid model | Wan et al.25 | PDB: 6EHM |
| composing two NP cores and two VP24 | ||
| molecules | ||
| NP core | Wan et al.25 | PDB: 6EHL |
| NP bound to VP35 chaperone peptide | Kirchdoerfer et al11 | PDB: 4ZTG |
| NP bound to VP35 chaperone peptide | Leung et al.12 | PDB: 4YPI |
| VP24 | Edwards et al.30 | PDB: 4M0Q |
| VP35 C-terminal domain | Leung et al.31 | PDB: 3FKE |
| VP35 protein and polymerase L from the EBOV L-VP35 complex | Yuan et al.15 | PDB: 7YER |
| VP35 protein and polymerase L from the EBOV L-VP35 complex | Peng et al.51 | PDB: 8JSL, 8JSM, 8JSN |
| in-virion nucleocapsid structure from virus-like particles | Wan et al.25 | EMD-3781 |
| in-virion nucleocapsid structure from Ebola virus | Wan et al.25 | EMD-3873 |
| intracellular nucleocapsid of NP601-739 | This study | EMD-42509 |
| intracellular nucleocapsid of full-length NP | This study | EMD-42515 |
| intracellular nucleocapsid model | This study | PDB: 8USN |
| in-viron nucleocapsid model | This study | PDB: 8UST |
| Experimental models: Cell lines | ||
| Human embryonic kidney HEK 293T cells | ATCC | Cat#CRL-3216 |
| African green monkey kidney tissue derived Vero cells | ATCC | Cat#CCL-81 |
| Vero cells stably expressing Ebola virus VP30 protein, VP30-Vero | Kawaoka Lab (University of Wisconsin, Madison) Feldmann et al.34 | N/A |
| Experimental models: Organisms/strains | ||
| Oligonucleotides | ||
| NP_del_601_739_EBOV_fw | Integrated DNA Technology | TGAATGAGCATGG AACAATGG |
| NP_del_601_739_EBOV_rev | Integrated DNA Technology | GCGGTTGGAAGTT CCGTC |
| Recombinant DNA | ||
| pCAGGS_NP_EBOV | Nelson et al. 60 | Addgene; Cat#103049 |
| pCAGGS_VP35_EBOV | Nelson et al. 60 | Addgene; Cat#103050 |
| pCAGGS_NPΔ601-739_EBOV | This study | N/A |
| pCAGGS_VP24_EBOV | Kawaoka Lab (University of Wisconsin, Madison) | N/A |
| Software and algorithms | ||
| Fiji | Schindelin et al.61 | https://imagej.net/software/fiji/ |
| IMOD package | Kremer et al.62 | https://bio3d.colorado.edu/imod/ |
| Maps 3 | Thermo Fisher Scientific | https://www.thermofisher.com/us/en/home/electron-microscopy/products/software-em-3d-vis/maps-software.html |
| SerialEM | Mastronarde63 | https://bio3d.colorado.edu/SerialEM/ |
| Warp 1.0.9 | Tegunov and Cramer64 | http://www.warpem.com/warp/ |
| M 1.0.9 | Tegunov et al.73 | http://www.warpem.com/warp/ |
| Amira 2021.1 | Thermo Fisher Scientific | https://www.thermofisher.com/us/en/home/electron-microscopy/products/software-em-3d-vis/amira-software.html?SID=srch-srp-AMIRA |
| MATLAB | MathWorks | https://www.mathworks.com/ |
| Dynamo | Castaño-Díez et al.67 | https://www.dynamo-em.org//w/index.php?title=Main_Page |
| HI3D | Sun et al.68 | https://helical-indexing-hi3d.streamlit.app/ |
| dynamo2m package | Burt et al.70 | https://github.com/alisterburt/dynamo2m |
| RELION 3.1 | Zivanov et al.71 | https://github.com/3dem/relion/ |
| ChimeraX 1.6.1 | Goddard et al.72 | https://www.cgl.ucsf.edu/chimerax/ |
| Chimera | Pettersen et al.75 | https://www.cgl.ucsf.edu/chimera/ |
| MemBrain | Lamm et al.76 | https://github.com/CellArchLab/MemBrain |
| ArtiaX | Ermel et al.74 | https://github.com/FrangakisLab/ArtiaX |
| OccuPy | Forsberg et al.77 | https://github.com/bforsbe/OccuPy |
| AlphaFold 2 | Jumper et al.78 | https://github.com/google-deepmind/alphafold |
| NAMDinator | Kidmose et al.79 | https://github.com/namdinator |
| PyMol | Schrödinger | https://www.pymol.org/ |
| Phenix Refine 1.13 | Liebschner et al.80 | https://phenix-online.org/ |
| T-Coffee package | Notredame et al.81 | https://tcoffee.crg.eu/ |
| Livingstone | Livingstone and Barton42,44 | https://www.compbio.dundee.ac.uk/aacon/ |
| Karlin | Karlin and Brocchieri41 | https://www.compbio.dundee.ac.uk/aacon/ |
| Valdar | Valdar and Thornton43 | https://www.compbio.dundee.ac.uk/aacon/ |
| Other | ||