Experiment: 6XOG

X-RAY DIFFRACTION

Crystallization

Crystalization Experiments
ID	Method	pH	Temperature	Details
1	VAPOR DIFFUSION		293	50 mM BisTris, pH 6.5, 50 mM Ammonium Sulfate, 30% pentaerythritol ethoxylate (Hampton Index 57)

Crystal Properties
Matthews coefficient	Solvent content
2.19	43.74

Crystal Data

Unit Cell
Length ( Å )	Angle ( ˚ )
a = 57.9	α = 90
b = 72.422	β = 93.858
c = 126.87	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		2013-05-29	M	SINGLE WAVELENGTH

Radiation Source
ID #	Source	Type	Wavelength List	Synchrotron Site	Beamline
1	SYNCHROTRON	CLSI BEAMLINE 08ID-1	0.97949	CLSI	08ID-1

Data Collection

Overall
ID #	Resolution (High)	Resolution (Low)	Percent Possible (Observed)	R Sym 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	1.98	47.702	98.47	0.093	25.7	3.7		71980

Highest Resolution Shell
ID #	Resolution (High)	Resolution (Low)	Percent Possible (All)	Percent Possible (Observed)	R-Sym I (Observed)	Mean I Over Sigma (Observed)	Redundancy	Number Unique Reflections (All)
1	1.98	2.05	97.15		0.818	2.37

Refinement

Statistics
Diffraction ID	Structure Solution Method	Cross Validation method	Starting model	Resolution (High)	Resolution (Low)	Number Reflections (Observed)	Number Reflections (R-Free)	Percent Reflections (Observed)	R-Factor (All)	R-Work	R-Free	Mean Isotropic B
X-RAY DIFFRACTION	MOLECULAR REPLACEMENT	FREE R-VALUE	1Y8R	1.98	47.702	71980	3655	98.465	0.208	0.2064	0.24	45.146

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]
0.075		0.632	0.67		-0.822

RMS Deviations
Key	Refinement Restraint Deviation
r_dihedral_angle_2_deg	33.337
r_dihedral_angle_4_deg	17.736
r_dihedral_angle_3_deg	15.53
r_lrange_it	9.892
r_scangle_it	7.458
r_dihedral_angle_1_deg	6.462
r_mcangle_it	5.903
r_scbond_it	5.274
r_mcbond_it	4.252
r_angle_refined_deg	1.617

RMS Deviations
Key	Refinement Restraint Deviation
r_dihedral_angle_2_deg	33.337
r_dihedral_angle_4_deg	17.736
r_dihedral_angle_3_deg	15.53
r_lrange_it	9.892
r_scangle_it	7.458
r_dihedral_angle_1_deg	6.462
r_mcangle_it	5.903
r_scbond_it	5.274
r_mcbond_it	4.252
r_angle_refined_deg	1.617
r_nbtor_refined	0.317
r_nbd_refined	0.228
r_symmetry_xyhbond_nbd_refined	0.174
r_xyhbond_nbd_refined	0.159
r_symmetry_nbd_refined	0.159
r_chiral_restr	0.142
r_bond_refined_d	0.009
r_gen_planes_refined	0.008

Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms	Number
Protein Atoms	6634
Nucleic Acid Atoms
Solvent Atoms	254
Heterogen Atoms	43

Software

Software
Software Name	Purpose
REFMAC	refinement
XDS	data reduction
XDS	data scaling
PHASER	phasing

RCSB PDB Core Operations are funded by the National Science Foundation (DBI-1832184), 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 R01GM133198.