REAGENT or RESOURCE | SOURCE | IDENTIFIER |
---|---|---|
Bacterial and virus strains | ||
E. coli (BL21(DE3)) | Merck | Cat#69450 |
E. coli (BL21(DE3)) | Bio-Rad | Cat#156-3003 |
E. coli (JM109(DE3)) | Promega | Cat#P9801 |
E. coli (BL21-CodonPlus (DE3)-RIL) | Agilent | Cat#230245 |
E. coli (DH5α) | Takara | Cat#9057 |
Chemicals, peptides, and recombinant proteins | ||
Recombinant human core histone H2A | Machida et al. (2018) | N/A |
Recombinant human core histone H2B | Machida et al. (2018) | N/A |
Recombinant human core histone H3.1 | This paper | N/A |
Recombinant human core histone H4 | Machida et al. (2018) | N/A |
Recombinant human p300(BRPHΔAILZ) | Zhang et al. (2018) | N/A |
Recombinant human p300(BRPHΔAILZ) R1137A | This paper | N/A |
Recombinant human p300(BRPHΔAILZ) BPD mutant (K1456A/K1459A/K1461A/R1462A) | This paper | N/A |
Thrombin | Cytiva | Cat#27084601 |
Enterokinase, light chain | New England Biolabs | Cat#P8070L |
Pre-Scission protease | Zhang et al. (2018) | N/A |
Glutaraldehyde 25% solution, practical grade | Electron Microscopy Sciences | Cat# 16220-P |
SYBR Gold | Thermo Fisher Scientific | Cat#S11494 |
DSS-H12/D12 | Creative Molecules Inc. | Cat#001S |
Trypsin/Lys-C Mix, Mass Spec Grade | Promega | Cat#V5072 |
Deposited data | ||
p300(BRPHΔAILZ)-NCP complex I | This paper | EMDB: EMD-32373 PDB: 7W9V |
p300(BRPHΔAILZ)-NCP complex II | This paper | EMDB: EMD-32374 |
p300(BRPHΔAILZ)-NCP complex III | This paper | EMDB: EMD-32375 |
p300(BRPHΔAILZ)-NCP complex IV | This paper | EMDB: EMD-32376 |
Crystal structure of nucleosome | Vasudevan et al. (2010) | PDB: 3LZ0 |
Crystal structure of the p300 acetyltransferase catalytic core | Kaczmarska et al. (2017) | PDB: 5LKU |
Crosslinking mass spectrometry data | This paper | jPOST: JPST001584 PXID: PXD033804 |
Mendeley Data | This paper | https://doi.org/10.17632/dgcnhyz779.1 |
Recombinant DNA | ||
pET-15b-H2A | Machida et al. (2018) | N/A |
pET-15b-H2B | Machida et al. (2018) | N/A |
pET-15b-H3.1 containing the enterokinase cleavage site | This paper | N/A |
pET-15b-H4 | Machida et al. (2018) | N/A |
pGEX-6P-1-p300(BRPHΔAILZ) | Zhang et al. (2018) | N/A |
pGEX-6P-1-p300(BRPHΔAILZ) R1137A | This paper | N/A |
pGEX-6P-1-p300(BRPHΔAILZ) BPD mutant (K1456A/K1459A/K1461A/R1462A) | This paper | N/A |
pGEM-T Easy-145 bp Widom 601 DNA | Arimura et al. (2013) | N/A |
Software and algorithms | ||
SerialEM ver.3 | Mastronarde (2005) | https://bio3d.colorado.edu/SerialEM/ |
Relion 3.1.2 | Zivanov et al. (2018) | https://www3.mrc-lmb.cam.ac.uk/relion//index.php/Main_Page |
MOTIONCOR2 1.4.0 | Zheng et al. (2017) | https://emcore.ucsf.edu/ucsf-software |
CTFFIND 4.1.14 | Rohou and Grigorieff (2015) | http://grigoriefflab.janelia.org/ctf |
UCSF ChimeraX-1.2.5 | Goddard et al. (2018) | https://www.cgl.ucsf.edu/chimerax/ |
COOT 0.9.5 | Emsley et al. (2010) | https://www2.mrc-lmb.cam.ac.uk/personal/pemsley/coot/ |
Phenix 1.19.2 | Liebschner et al. (2019) | http://www.phenix-online.org |
ISOLDE 1.2.2 | Croll (2018) | https://isolde.cimr.cam.ac.uk/what-isolde/ |
MolProbity 4.5.1 | Williams et al. (2018) | http://molprobity.biochem.duke.edu |
xQuest/xProphet 2.1.3 | Leitner et al. (2014) | https://gitlab.ethz.ch/leitner_lab/xquest_xprophet |
ImageJ 1.52a | Schneider et al. (2012) | https://imagej.nih.gov/ij/ |
Other | ||
Ni-NTA agarose beads | QIAGEN | Cat#30250 |
Pierce Glutathione Agarose | Thermo Fisher Scientific | Cat#16101 |
Mono S HR 16/10 column | Cytiva | Cat#17050701 |
HiTrap Q HP anion exchange column | Cytiva | Cat#17115401 |
HiLoad 16/600 Superdex 75 pg column | Cytiva | Cat#28989333 |
HiLoad 16/600 Superdex 200 pg column | Cytiva | Cat#28989335 |
Superdex 30 Increase 3.2/300 column | Cytiva | Cat#29219758 |
PD-10 column | Cytiva | Cat#17085101 |
Pierce C18 Tips | Thermo Fisher Scientific | Cat# 87784 |
C18 NANO HPLC CAPILLARY COLUMN | Nikkyo Technos Co., Ltd. | Cat# NTCC-360/75-3-125 |
Amicon Ultra-4 centrifugal filter unit (30,000 MWCO) | Merck | Cat#UFC803096 |
Amicon Ultra-2 centrifugal filter unit (30,000 MWCO) | Merck | Cat#UFC203024 |
Peristaltic pump | ATTO Corporation | Cat#1221200 |
Model 491 Prep Cell | Bio-Rad | Cat#1702928 |
Q5 Site-Directed Mutagenesis Kit | New England Biolabs | Cat#E0554S |
QuikChange Lightning Site-Directed Mutagenesis Kit | Agilent | Cat#210518 |
SW 41 Ti Swinging-Bucket Rotor | Beckman Coulter | Cat#331362 |
Quantifoil R1.2/1.3 200-mesh Cu | Quantifoil | Cat#M2955C-1 |
Vitrobot Mark IV | Thermo Fisher Scientific | |
Krios G3i microscope | Thermo Fisher Scientific | |
UltiMate 3000 UHPLC system | Thermo Fisher Scientific | |
Orbitrap Fusion Tribrid mass spectrometer | Thermo Fisher Scientific |