Reagents and tools table
| Reagent/Resource | Reference or Source | Identifier or Catalog Number |
|---|---|---|
| Experimental models | ||
| hTERT-RPE-1 cells | ATCC | CRL-4000 |
| Recombinant DNA | ||
| N/A | ||
| Antibodies | ||
| Alexa Fluor® 647 anti-histone H3 (phospho S10) | Abcam | ab196698 |
| Rabbit polyclonal Anti-phospho-Histone H3 (Ser10) | Abcam | ab5176 |
| Mouse anti-rabbit IgG-HRP | Santa Cruz | sc-2357 |
| Rabbit polyclonal to beta Tubulin | Abcam | ab6046 |
| m-IgGκ BP-HRP | Santa Cruz | sc-516102 |
| cyclin B1 (GNS1) mouse monoclonal IgG1 | Santa Cruz | sc-245 |
| Anti-RPB1 CTD(S5P) | Abcam | ab5131 |
| Anti-RPB1 CTD(S2P) | Abcam | ab5095 |
| Oligonucleotides and other sequence-based reagents | ||
| N/A | ||
| Chemicals, Enzymes and other reagents | ||
| Chemicals | ||
| 4′,6-diamidino-2-phenylindole (DAPI) | TFS | D1306 |
| Dimethyl sulfoxide (DMSO) | Sigma | 472301 |
| DMEM/F-12 with GlutaMAX | Gibco/TFS | 10565-018 |
| Fetal bovine serum | Sigma | F9665 |
| Glycine | Bio-Rad | 1610718 |
| MG132 | Merck | M7449-1ML |
| Nocodazole | Merck | SML1665-1ML |
| Palbociclib | Selleckchem | S1116 |
| Paraformaldehyde | EMS | 15714 |
| Penicillin-streptomycin | Gibco | 15140-122 |
| Phosphate-buffered saline (PBS) | Vivantis | PB0344-1L |
| PBS-T (PBS + 0.1% Tween 20) | Sinopharm | T20087687 |
| Prolong Gold antifade reagent | TFS | P36930 |
| Taxol | Santa Cruz | 33069-62-4 |
| Triton X-100 | Alfa Aesar | A16046 |
| Chromatin | ||
| HeLa oligonucleosomes | EpiCypher | 16-0003 |
| Software | ||
| Adobe Illustrator | Adobe | |
| Adobe Photoshop | Adobe | |
| Adobe Premiere Pro | Adobe | |
| Auxiliary scripts | Gan lab, github.com/anaphaze/ot-tools | |
| BioRender | BioRender | |
| Bsoft | lsbr.niams.nih.gov/bsoft (Heymann and Belnap, 2007) | |
| cryo-CARE | github.com/juglab/cryoCARE_pip (Buchholz et al, 2019) | |
| EMAN2 | blake.bcm.edu/emanwiki/EMAN2 (Chen et al, 2017) | |
| FIJI | imagej.net/software/fiji (Schindelin et al, 2012) | |
| Google sheets | ||
| IMOD | bio3d.colorado.edu/imod (Mastronarde, 1997) | |
| PEET | bio3d.colorado.edu/PEET (Nicastro et al, 2006) | |
| RELION | github.com/3dem/relion (Scheres, 2012) | |
| SerialEM | bio3d.colorado.edu/SerialEM (Mastronarde, 2005) | |
| UCSF Chimera | www.cgl.ucsf.edu/chimera (Pettersen et al, 2004) | |
| Other | ||
| Light microscopy | ||
| LSM900 AiryScan microscope | Zeiss | N/A |
| 20×, 0.8 N.A. Plan-Apochromat | Zeiss | N/A |
| 63×, 1.4 N.A. oil Plan-Apochromat | Zeiss | N/A |
| ZEN 3.0 (blue edition) | Zeiss | N/A |
| Eclipse Ti microscope | Nikon | N/A |
| Plan Fluor 10x Ph1 objective | Nikon | N/A |
| 20 mm Ø coverslip | Paul Marienfeld GmbH | 0112600 |
| Electron cryomicroscopy | ||
| C-flat 2/4 200 mesh, gold | Protochips | CF-2/4-2Au |
| C-Clip Ring (autogrid) | TFS | 1036173 |
| CryoFIB autogrid | TFS | 1205101 |
| C-flat 2/4 200 mesh, copper | Protochips | CF-2/4-2C |
| Continuous carbon | EMS | CF200-Cu-UL |
| Whatman Grade 1 filter paper | Whatman | 1001-055 |
| Copper tubes, 0.3 mm inner diameter | Wohlwend | N/A |
| Copper tube loading tool | Wohlwend | Part 733-1 |
| Copper tube cutting device | Wohlwend | Part 732 |
| UC7/FC7 Microtome | Leica | N/A |
| 35° diamond knife | Diatome | Cryo35 |
| Micromanipulator, Leica | Leica | N/A |
| Micromanipulator, MN-151-S | Narishige | N/A |
| Vitrobot Mark IV | TFS | N/A |
| Helios Nanolab 650 FIB-SEM | TFS | N/A |
| PolarPrep 2000 Cryo Transfer System | Quorum | N/A |
| Titan Krios G1 cryo-TEM | TFS | N/A |
| Falcon II camera | TFS | N/A |
| Gatan K3 Summit camera | AMETEK | N/A |
| Gatan BioContinuum imaging filter | AMETEK | N/A |