| Antibodies |
| Anti-PAAF1 rabbit polyclonal antibody |
Abcam |
Cat#ab103566 |
| Anti-p28 rabbit monoclonal antibody |
Abcam |
Cat#ab182576 |
| Chemicals, Peptides, and Recombinant Proteins |
| NaH2PO4
|
Sigma-Aldrich |
Cat#S8282; CAS: 7558-80-7 |
| Na2HPO4
|
Sigma-Aldrich |
Cat#431478; CAS: 7782-85-6 |
| NaCl |
Sigma-Aldrich |
Cat#S7653; CAS: 7647-14-5 |
| MgCl2
|
Sigma-Aldrich |
Cat#M8266; CAS: 7786-30-3 |
| IGEPAL® CA-630 (NP-40) |
Sigma-Aldrich |
Cat#I3021; CAS: 9002-93-1 |
| ATP disodium salt |
Sigma-Aldrich |
Cat#A2383; CAS: 34369-07-8 |
| DTT |
Sigma-Aldrich |
Cat#D0632; CAS: 3483-12-3 |
| TEV protease |
Sigma-Aldrich |
Cat#T4455 |
| HCl |
Sigma-Aldrich |
Cat#H1758; CAS: 7647-01-0 |
| Tris base |
Sigma-Aldrich |
Cat#T1503; CAS:77-86-1 |
| HEPES |
Sigma-Aldrich |
Cat#H3375; CAS: 7365-45-9 |
| TCEP |
Sigma-Aldrich |
Cat#C4706; CAS: 51805-45-9 |
| EDTA disodium salt dihydrate |
Sigma-Aldrich |
Cat#E4884; CAS: 6381-92-6 |
| Glycerol |
Sigma-Aldrich |
Cat#G9012; CAS: 56-81-5 |
| Malachite Green |
Sigma-Aldrich |
Cat#HT8028; CAS: |
| Ammonium molybdate |
Sigma-Aldrich |
Cat#A1343; CAS: 12054-85-2 |
| TWEEN® 20 |
Sigma-Aldrich |
Cat#P9416; CAS: 9005-64-5 |
| Triton X-100 |
Sigma-Aldrich |
Cat# X100; CAS: 9002-93-1 |
| AcTEV protease |
Thermo Fisher Scientific |
Cat# 12575015 |
| DMEM |
Thermo Fisher Scientific |
Cat# 11965084 |
| Penicillin-Streptomycin |
Thermo Fisher Scientific |
Cat# 15070063 |
| PBS |
Corning |
Cat#21-040-CV |
| Fetal Bovine Serum |
TaKaRa |
Cat#631106 |
| pySic1-iRFP |
This paper |
N/A |
| ClpA |
TWeber-Ban et al., 1999 |
N/A |
| GroEL |
TWeber-Ban et al., 1999 |
N/A |
| Critical Commercial Assays |
| Pierce™ NeutrAvidin™ Agarose |
Thermo Fisher Scientific |
Cat# 29200 |
| Superose 6 10/300 GL column |
GE Life Science |
Cat# 17517201 |
| NI-NTA AGAROSE |
QIAGEN |
Cat#30210 |
| IgG resin |
GE Life Science |
Cat#17-0969-01 |
| Deposited Data |
| CryoEM map of the non-AAA structure of free RP |
This paper |
EMBD: EMD-8672 |
| Atomic model of the non-AAA structure of free RP |
This paper |
PDB: 5VGZ |
| CryoEM map of the p28-bound RP structure in T1
|
This paper |
EMBD: EMD-8674 |
| Pseudo-atomic model of the p28-bound RP structure in T1
|
This paper |
PDB: 5VHF |
| CryoEM map of the p28-bound RP structure in T2
|
This paper |
EMBD: EMD-8675 |
| Pseudo-atomic model of the p28-bound RP structure in T2
|
This paper |
PDB: 5VHH |
| CryoEM map of the p28-bound structure of RP in T3
|
This paper |
EMBD: EMD-8676 |
| Pseudo-atomic model of the p28-bound RP structure in T3
|
This paper |
PDB: 5VHI |
| CryoEM map of the Rpn1-p28-AAA subcomplex in TA1
|
This paper |
EMBD: EMD-8677 |
| Pseudo-atomic model of the Rpn1-p28-AAA subcomplex in TA1
|
This paper |
PDB: 5VHJ |
| CryoEM map of the Rpn1-p28-AAA subcomplex in TA2
|
This paper |
EMBD: EMD-8678 |
| Pseudo-atomic model of the Rpn1-p28-AAA subcomplex in TA2
|
This paper |
PDB: 5VHM |
| CryoEM map of the Rpn1-p28-AAA subcomplex in TA3
|
This paper |
EMBD: EMD-8679 |
| Pseudo-atomic model of the Rpn1-p28-AAA subcomplex in TA3
|
This paper |
PDB: 5VHN |
| CryoEM map of the Rpn1-p28-AAA subcomplex in TA4
|
This paper |
EMBD: EMD-8680 |
| Pseudo-atomic model of the Rpn1-p28-AAA subcomplex in TA4
|
This paper |
PDB: 5VHO |
| CryoEM map of the Rpn1-p28-AAA subcomplex in TA5
|
This paper |
EMBD: EMD-8681 |
| Pseudo-atomic model of the Rpn1-p28-AAA subcomplex in TA5
|
This paper |
PDB: 5VHP |
| CryoEM map of the Rpn1-p28-AAA subcomplex in TA6
|
This paper |
EMBD: EMD-8682 |
| Pseudo-atomic model of the Rpn1-p28-AAA subcomplex in TA6
|
This paper |
PDB: 5VHQ |
| CryoEM map of the Rpn1-p28-AAA subcomplex in TA7
|
This paper |
EMBD: EMD-8683 |
| Pseudo-atomic model of the Rpn1-p28-AAA subcomplex in TA7
|
This paper |
PDB: 5VHR |
| Cryo-EM map of the p28-free RP structure |
This paper |
EMBD: EMD-8684 |
| Pseudo-atomic model of the p28-free RP structure |
This paper |
PDB: 5VHS |
| The raw micrographs and particle data |
This paper |
EMPIAR-10091 |
| The original gel images |
This paper |
http://dx.doi.org/10.17632/jzx75c6vbs.1 |
| Experimental Models: Cell Lines |
| HEK293 harboring HTBH tagged hRPN11 |
Wang et al., 2007 |
N/A |
| Software and Algorithms |
| Leginon |
Suloway et al., 2005 |
http://emg.nysbc.org/redmine/projects/leginon/wiki/Leginon_Homepage |
| MotionCor |
Li et al., 2013 |
http://cryoem.ucsf.edu/software/driftcorr.html |
| CTFFind3 |
Mindell and Grigorieff, 2003 |
http://grigoriefflab.janelia.org/ctf |
| SPIDER |
Shaikh et al., 2008 |
https://spider.wadsworth.org/ |
| EMAN2 |
Tang et al., 2007 |
http://blake.bcm.edu/emanwiki/EMAN2 |
| ROME |
Wu et al., 2016 |
http://ipccsb.dfci.harvard.edu/rome |
| RELION |
Scheres, 2012b |
http://www2.mrc-lmb.cam.ac.uk/relion |
| Bfactor |
Grigorieff et al. |
http://grigoriefflab.janelia.org/grigorieff/download_b.html |
| ResMap |
Kucukelbir et al., 2014 |
http://resmap.sourceforge.net |
| Coot |
Emsley and Cowtan, 2004 |
https://www2.mrc-lmb.cam.ac.uk/personal/pemsley/coot/ |
| Phenix |
Adams et al., 2010 |
https://www.phenix-online.org |
| Chimera |
Pettersen et al., 2004 |
http://www.cgl.ucsf.edu/chimera |
| PISA |
Krissinel and Henrick, 2007 |
http://www.ebi.ac.uk/pdbe/pisa/ |
| Pajek |
De Nooy, et al., 2011 |
http://mrvar.fdv.uni-lj.si/pajek/ |
| Matlab |
The MathWorks Inc., Natick, MA, 2000 |
https://www.mathworks.com |
| Other |
| C-flat grid |
Protochips |
R1/1 400 mesh |
