Biological Samples |
Preparation of HO shell |
(Sutter et al., 2017) |
N/A |
Chemicals, Peptides, and Recombinant Proteins |
Nonidet P40 substitute |
Sigma-Aldrich |
Cat# 11332473001 |
Deposited Data |
Coordinates HO shell main population |
this paper |
PDB ID 6MZX |
Map HO shell main population |
this paper |
EMD-9309 |
Coordinates HO shell compacted |
this paper |
PDB ID 6MZY |
Map HO shell compacted |
this paper |
EMD-9310 |
Coordinates for subvolume with BMC-TS
|
this paper |
PDB ID 6N06 |
Map for subvolume with BMC-TS
|
this paper |
EMD-9311 |
Coordinates BMC-TD (main population, closed) |
this paper |
PDB ID 6MZU |
Map BMC-TD (main population, closed) |
this paper |
EMD-9307 |
Coordinates BMC-TD (main population, widened) |
this paper |
PDB ID 6MZV |
Map BMC-TD (main population, widened) |
this paper |
EMD-9308 |
Coordinates BMC-TD (compacted population, open) |
this paper |
PDB ID 6N07 |
Map BMC-TD (compacted population, open) |
this paper |
EMD-9312 |
Coordinates BMC-T four positions (TDTSTSTS) |
this paper |
PDB ID 6N0F |
Map BMC-T four positions (TDTSTSTS) |
this paper |
EMD-9314 |
Coordinates BMC-T four positions (TDTDTDTD) |
this paper |
PDB ID 6N09 |
Map BMC-T four positions (TDTDTDTD) |
this paper |
EMD-9313 |
Coordinates BMC-T four positions (TSTDTDTD) |
this paper |
PDB ID 6N0G |
Map BMC-T four positions (TSTDTDTD) |
this paper |
EMD-9315 |
Map HO shell C1 refinement |
this paper |
EMD-9296 |
Coordinates HO shell X-ray structure |
(Sutter et al., 2017) |
PDB ID 5V74 |
Map HO shell low-resolution cryo-EM (initial reference) |
(Sutter et al., 2017) |
EMD-8747 |
Coordinates of ligand-bound CcmP, fully open |
(Larsson et al., 2017) |
PDB ID 5LT5 |
Coordinates of BMC-TS from Citrobacter freundii
|
(Pang et al., 2011) |
PDB ID 3PAC |
Coordinates of BMC-TS from Haliangium ochraceum
|
(Aussignargues et al., 2016) |
PDB ID 5DIH |
Software and Algorithms |
MOTIONCOR2 |
(Zheng et al., 2017) |
N/A |
CTFFIND 4 |
(Rohou and Grigorieff, 2015) |
N/A |
LEGINON |
(Suloway et al., 2005) |
N/A |
RELION 1.4 |
(Scheres, 2012) |
N/A |
RELION 2.0 |
(Kimanius et al., 2016) |
N/A |
FREALIGN 9 |
(Grigorieff, 2007; Grigorieff, 2016) |
N/A |
PHENIX 1.14 |
(Adams et al., 2010) |
N/A |
COOT 0.8.1 |
(Emsley et al., 2010) |
N/A |
HMMSCAN |
(Eddy, 2008) |
N/A |
CLUSTAL X |
(Larkin et al., 2007) |
N/A |
HOMOLMAPPER |
(Rockwell and Lagarias, 2007) |
N/A |
UCSF CHIMERA 1.11 |
(Pettersen et al., 2004) |
N/A |
PYMOL 1.7 |
Schrödinger, LLC |
N/A |
Other |
C-flat 1.2/1.3 holey carbon films on Cu 400 mesh grid |
Protochips, Morrisville, USA |
Cat# CF-1.2/1.3–4C |