Experiment: 3ES5

X-RAY DIFFRACTION

Starting Model(s)

Initial Refinement Model(s)
Type	Source	Accession Code	Details
experimental model	Other		cryo-EM reconstruction (resolution: 7.8 A, start resolution: 10.0 A)

Crystallization

Crystalization Experiments
ID	Method	pH	Temperature	Details
1	VAPOR DIFFUSION, HANGING DROP	8.5	283	0.10 M Tris, 1.98 M Ammonium Sulfate, 0.10 M Potassium Fluoride, pH 8.5, VAPOR DIFFUSION, HANGING DROP, temperature 283K
2	VAPOR DIFFUSION, HANGING DROP	8.5	283	0.10 M Tris, 1.98 M Ammonium Sulfate, 0.10 M Sodium Tiocyanate , pH 8.5, VAPOR DIFFUSION, HANGING DROP, temperature 283K
3	VAPOR DIFFUSION, HANGING DROP	8.5	283	0.10 M Tris, 1.98 M Ammonium Sulfate, 0.10 M Sodium Acetate, pH 8.5, VAPOR DIFFUSION, HANGING DROP, temperature 283K

Crystal Data

Unit Cell
Length ( Å )	Angle ( ˚ )
a = 459.266	α = 90
b = 459.266	β = 90
c = 459.266	γ = 90

Symmetry
Space Group	F 2 3

Diffraction

Diffraction Experiment
ID #	Crystal ID	Scattering Type	Data Collection Temperature	Detector	Detector Type	Details	Collection Date	Monochromator	Protocol
1	1	x-ray	274	CCD	ADSC QUANTUM 4	24-inch Rh coated Si Monochromatic Mirrors (please check http://www.chess.cornell.edu/chess/east/F1.htm for details)	2007-01-01	M	SINGLE WAVELENGTH
2	1	x-ray	274	CCD	ADSC QUANTUM 4	24-inch Rh coated Si Monochromatic Mirrors	2007-11-16	M	SINGLE WAVELENGTH

Radiation Source
ID #	Source	Type	Wavelength List	Synchrotron Site	Beamline
1	SYNCHROTRON	CHESS BEAMLINE F1	0.91790	CHESS	F1
2	SYNCHROTRON	CHESS BEAMLINE F1	0.91790	CHESS	F1

Data Collection

Overall
ID #	Resolution (High)	Resolution (Low)	Percent Possible (Observed)	R Merge I (Observed)	Net I Over Average Sigma (I)	Redundancy	Number Reflections (All)	Number Reflections (Observed)	Observed Criterion Sigma (F)	Observed Criterion Sigma (I)	B (Isotropic) From Wilson Plot
1,2	3.3	50	75.3	0.206	4.08	1.8		119427	2	2

Highest Resolution Shell
ID #	Resolution (High)	Resolution (Low)	Percent Possible (All)	Percent Possible (Observed)	R Merge I (Observed)	Mean I Over Sigma (Observed)	Redundancy	Number Unique Reflections (All)
	3.3	3.42	74.1		0.5	1.61	1.8	8783

Refinement

Statistics
Diffraction ID	Structure Solution Method	Cross Validation method	Starting model	Resolution (High)	Resolution (Low)	Number Reflections (All)	Number Reflections (Observed)	Number Reflections (R-Free)	Percent Reflections (Observed)	R-Work (Depositor)	R-Work (DCC)	R-Free (Depositor)	R-Free (DCC)	R-Free Selection Details	Mean Isotropic B
X-RAY DIFFRACTION	AB INITIO PHASING	THROUGHOUT	cryo-EM reconstruction (resolution: 7.8 A, start resolution: 10.0 A)	3.3	48.96	119586	89413	5407	74.9	0.248	0.24	0.267	0.24	RANDOM	52

Temperature Factor Modeling
Anisotropic B[1][1]	Anisotropic B[1][2]	Anisotropic B[1][3]	Anisotropic B[2][2]	Anisotropic B[2][3]	Anisotropic B[3][3]

RMS Deviations
Key	Refinement Restraint Deviation
c_dihedral_angle_deg	21.1
c_angle_deg	1.4
c_improper_angle_deg	0.88
c_bond_d	0.009

Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms	Number
Protein Atoms	5919
Nucleic Acid Atoms
Solvent Atoms
Heterogen Atoms

Software

Software
Software Name	Purpose
HKL-2000	data collection
RAVE	model building
CNS	refinement
HKL-2000	data reduction
SCALEPACK	data scaling
RAVE	phasing

RCSB PDB Core Operations are funded by the U.S. National Science Foundation (DBI-2321666), the US Department of Energy (DE-SC0019749), and the National Cancer Institute, National Institute of Allergy and Infectious Diseases, and National Institute of General Medical Sciences of the National Institutes of Health under grant R01GM157729.