Experiment: 5QU3

X-RAY DIFFRACTION

Starting Model(s)

Initial Refinement Model(s)
Type	Source	Accession Code	Details
other		inhouse model

Crystallization

Crystalization Experiments
ID	Method	pH	Temperature	Details
1	VAPOR DIFFUSION, SITTING DROP	5.5	293	0.1 M Tris/HCl pH 8.0, 0.15 M NaCl, 8% PEG 8000

Crystal Properties
Matthews coefficient	Solvent content
1.66	25.81

Crystal Data

Unit Cell
Length ( Å )	Angle ( ˚ )
a = 29.453	α = 90
b = 55.723	β = 98.7
c = 39.924	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	PIXEL	PSI PILATUS 6M		2018-05-17	M	SINGLE WAVELENGTH

Radiation Source
ID #	Source	Type	Wavelength List	Synchrotron Site	Beamline
1	SYNCHROTRON	SLS BEAMLINE X10SA	1.0	SLS	X10SA

Data Collection

Overall
ID #	Resolution (High)	Resolution (Low)	Percent Possible (Observed)	R Merge I (Observed)	Rrim I (All)	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	1.02	32.23	91.8	0.049	0.054	0.999	9.88	4.84		59526			17.574

Highest Resolution Shell
ID #	Resolution (High)	Resolution (Low)	Percent Possible (All)	Percent Possible (Observed)	R Merge I (Observed)	Rrim I (All)	CC (Half)	Mean I Over Sigma (Observed)	Redundancy	Number Unique Reflections (All)
1	1.02	1.05	73.4		3.718	4.264	0.181	0.29	4.047

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 (Observed)	R-Work (Depositor)	R-Work (DCC)	R-Free (Depositor)	R-Free (DCC)	R-Free Selection Details	Mean Isotropic B
X-RAY DIFFRACTION	MOLECULAR REPLACEMENT	THROUGHOUT	inhouse model	1.02	32.23	38767	2101	62.77	0.1645	0.1632	0.17	0.1888	0.19	RANDOM	13.641

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]
-0.93		0.1	0.34		0.54

RMS Deviations
Key	Refinement Restraint Deviation
r_sphericity_free	33.203
r_dihedral_angle_2_deg	31.528
r_dihedral_angle_4_deg	24.784
r_dihedral_angle_3_deg	11.786
r_sphericity_bonded	11.113
r_dihedral_angle_1_deg	7.473
r_rigid_bond_restr	2.945
r_angle_refined_deg	1.636
r_angle_other_deg	0.999
r_chiral_restr	0.097

RMS Deviations
Key	Refinement Restraint Deviation
r_sphericity_free	33.203
r_dihedral_angle_2_deg	31.528
r_dihedral_angle_4_deg	24.784
r_dihedral_angle_3_deg	11.786
r_sphericity_bonded	11.113
r_dihedral_angle_1_deg	7.473
r_rigid_bond_restr	2.945
r_angle_refined_deg	1.636
r_angle_other_deg	0.999
r_chiral_restr	0.097
r_bond_refined_d	0.013
r_gen_planes_refined	0.01
r_gen_planes_other	0.002
r_bond_other_d	0.001

Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms	Number
Protein Atoms	960
Nucleic Acid Atoms
Solvent Atoms	207
Heterogen Atoms

Software

Software
Software Name	Purpose
XSCALE	data scaling
REFMAC	refinement
PDB_EXTRACT	data extraction
XDS	data reduction
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.