Experiment: 8EGW

X-RAY DIFFRACTION

Starting Model(s)

Initial Refinement Model(s)
Type	Source	Accession Code	Details
experimental model	PDB	2A4C	2A4C, 4ZPL, 4ZI8, 4ZPO, 5IU9, 3Q2W
experimental model	PDB	4ZPL	2A4C, 4ZPL, 4ZI8, 4ZPO, 5IU9, 3Q2W
experimental model	PDB	4ZI8	2A4C, 4ZPL, 4ZI8, 4ZPO, 5IU9, 3Q2W
experimental model	PDB	4ZPO	2A4C, 4ZPL, 4ZI8, 4ZPO, 5IU9, 3Q2W
experimental model	PDB	5IU9	2A4C, 4ZPL, 4ZI8, 4ZPO, 5IU9, 3Q2W
experimental model	PDB	3Q2W	2A4C, 4ZPL, 4ZI8, 4ZPO, 5IU9, 3Q2W

Crystallization

Crystalization Experiments
ID	Method	pH	Temperature	Details
1	VAPOR DIFFUSION, SITTING DROP		293.15	0.08 M Magnesium Chloride; 0.1 M Sodium Cacodylate, pH 6.1; 20% Polyethylene Glycol 1000

Crystal Properties
Matthews coefficient	Solvent content
2.99	58.91

Crystal Data

Unit Cell
Length ( Å )	Angle ( ˚ )
a = 88.66	α = 90
b = 61.37	β = 112.74
c = 100.966	γ = 90

Symmetry
Space Group	P 1 21 1

Diffraction

Diffraction Experiment
ID #	Crystal ID	Scattering Type	Data Collection Temperature	Detector	Detector Type	Details	Collection Date	Monochromator	Protocol
1	1	x-ray	100	CCD	RAYONIX MX-300		2019-04-11	M	SINGLE WAVELENGTH

Radiation Source
ID #	Source	Type	Wavelength List	Synchrotron Site	Beamline
1	SYNCHROTRON	APS BEAMLINE 22-BM	1.0	APS	22-BM

Data Collection

Overall
ID #	Resolution (High)	Resolution (Low)	Percent Possible (Observed)	CC (Half)	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	2.204	49.085	99.27	0.995	8.87	3.4		50558

Highest Resolution Shell
ID #	Resolution (High)	Resolution (Low)	Percent Possible (All)	Percent Possible (Observed)	CC (Half)	Mean I Over Sigma (Observed)	Redundancy	Number Unique Reflections (All)
1	2.204	2.283	98.24		0.8

Refinement

Statistics
Diffraction ID	Structure Solution Method	Cross Validation method	Starting model	Resolution (High)	Resolution (Low)	Cut-off Sigma (F)	Number Reflections (Observed)	Number Reflections (R-Free)	Percent Reflections (Observed)	R-Factor (Observed)	R-Work (Depositor)	R-Work (DCC)	R-Free (Depositor)	R-Free (DCC)	Mean Isotropic B
X-RAY DIFFRACTION	MOLECULAR REPLACEMENT	THROUGHOUT	2A4C, 4ZPL, 4ZI8, 4ZPO, 5IU9, 3Q2W	2.3	49.083	1.35	44762	2008	99.9	0.192	0.19	0.19	0.2352	0.24

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
f_dihedral_angle_d	14.66
f_angle_d	1.041
f_chiral_restr	0.055
f_bond_d	0.009
f_plane_restr	0.008

Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms	Number
Protein Atoms	5626
Nucleic Acid Atoms
Solvent Atoms	292
Heterogen Atoms	260

Software

Software
Software Name	Purpose
PHENIX	refinement
PDB_EXTRACT	data extraction
XDS	data reduction
XDS	data scaling
PHASER	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.