Experiment: 8AD1

RNA polymerase at U-rich pause bound to RNA putL triple mutant - pause prone, closed clamp state

ELECTRON MICROSCOPY

Starting Model(s)

Initial Refinement Model(s)
Type	Source	Accession Code	Details
experimental model	PDB	6ALH

Refinement

RMS Deviations
Key	Refinement Restraint Deviation
f_dihedral_angle_d	15.5508
f_angle_d	1.0039
f_chiral_restr	0.0413
f_bond_d	0.0283
f_plane_restr	0.0035

Sample
Escherichia coli RNA polymerase putL triple mutant complex - pause prone, closed clamp state

Specimen Preparation
Sample Aggregation State	PARTICLE
Vitrification Instrument	FEI VITROBOT MARK IV
Cryogen Name	ETHANE
Sample Vitrification Details	Quantifoil UltrAuFoil R1.2/1.3 300 mesh holey gold grids were plasma cleaned on a Model 1070 (Fischione Instruments) for 30 sec at 70% power and with ...	Quantifoil UltrAuFoil R1.2/1.3 300 mesh holey gold grids were plasma cleaned on a Model 1070 (Fischione Instruments) for 30 sec at 70% power and with an 80% Argon and 20% Oxygen mixture prior to the application of 0.004 ml of sample. Grids were plunge frozen into liquid ethane using a Vitrobot mark IV (FEI) with 95% chamber humidity at 283K.

3D Reconstruction
Reconstruction Method	SINGLE PARTICLE
Number of Particles	93293
Reported Resolution (Å)	4.1
Resolution Method	FSC 0.143 CUT-OFF
Other Details
Refinement Type
Symmetry Type	POINT

Map-Model Fitting and Refinement
Id	1 (6ALH)
Refinement Space	REAL
Refinement Protocol	FLEXIBLE FIT
Refinement Target	map cross correlation
Overall B Value
Fitting Procedure
Details

Data Acquisition
Detector Type	GATAN K3 (6k x 4k)
Electron Dose (electrons/Å**2)	52

Imaging Experiment	1
Date of Experiment
Temperature (Kelvin)
Microscope Model	FEI TITAN KRIOS
Minimum Defocus (nm)	800
Maximum Defocus (nm)	2500
Minimum Tilt Angle (degrees)
Maximum Tilt Angle (degrees)
Nominal CS
Imaging Mode	BRIGHT FIELD
Specimen Holder Model	FEI TITAN KRIOS AUTOGRID HOLDER
Nominal Magnification
Calibrated Magnification
Source	FIELD EMISSION GUN
Acceleration Voltage (kV)	300
Imaging Details

EM Software
Task	Software Package	Version
IMAGE ACQUISITION	SerialEM
CTF CORRECTION	CTFFIND	4
MODEL FITTING	Coot	0.9
INITIAL EULER ASSIGNMENT	cryoSPARC	3.3
FINAL EULER ASSIGNMENT	cryoSPARC	3.3
CLASSIFICATION	cryoSPARC	3.3
RECONSTRUCTION	cryoSPARC	3.3
MODEL REFINEMENT	PHENIX	1.20

Image Processing
CTF Correction Type	CTF Correction Details	Number of Particles Selected	Particle Selection Details
PHASE FLIPPING AND AMPLITUDE CORRECTION