Experiment: 5SZO

X-RAY DIFFRACTION

Starting Model(s)

Initial Refinement Model(s)
Type	Source	Accession Code	Details
experimental model	PDB	4ZPL	4ZPL, 4ZPM, 4ZPO, 4ZPS, 5DZV, 5DZX, 4ZI9, 4ZI8, 5ZSM, and 5SZN
experimental model	PDB	4ZPM	4ZPL, 4ZPM, 4ZPO, 4ZPS, 5DZV, 5DZX, 4ZI9, 4ZI8, 5ZSM, and 5SZN
experimental model	PDB	4ZPO	4ZPL, 4ZPM, 4ZPO, 4ZPS, 5DZV, 5DZX, 4ZI9, 4ZI8, 5ZSM, and 5SZN
experimental model	PDB	4ZPS	4ZPL, 4ZPM, 4ZPO, 4ZPS, 5DZV, 5DZX, 4ZI9, 4ZI8, 5ZSM, and 5SZN
experimental model	PDB	5DZV	4ZPL, 4ZPM, 4ZPO, 4ZPS, 5DZV, 5DZX, 4ZI9, 4ZI8, 5ZSM, and 5SZN
experimental model	PDB	5DZX	4ZPL, 4ZPM, 4ZPO, 4ZPS, 5DZV, 5DZX, 4ZI9, 4ZI8, 5ZSM, and 5SZN
experimental model	PDB	4ZI9	4ZPL, 4ZPM, 4ZPO, 4ZPS, 5DZV, 5DZX, 4ZI9, 4ZI8, 5ZSM, and 5SZN
experimental model	PDB	4ZI8	4ZPL, 4ZPM, 4ZPO, 4ZPS, 5DZV, 5DZX, 4ZI9, 4ZI8, 5ZSM, and 5SZN
experimental model	PDB	5ZSM	4ZPL, 4ZPM, 4ZPO, 4ZPS, 5DZV, 5DZX, 4ZI9, 4ZI8, 5ZSM, and 5SZN
experimental model	PDB	5SZN	4ZPL, 4ZPM, 4ZPO, 4ZPS, 5DZV, 5DZX, 4ZI9, 4ZI8, 5ZSM, and 5SZN

Crystallization

Crystalization Experiments
ID	Method	pH	Temperature	Details
1	BATCH MODE	8.5	295	0.1 M Tris-Cl pH 8.5, 0.2 M trimethylamine N-oxide, 3% dextran sulfate sodium salt 5000, 17% (w/v) PEG2000MME

Crystal Properties
Matthews coefficient	Solvent content
3.9	68.43

Crystal Data

Unit Cell
Length ( Å )	Angle ( ˚ )
a = 97.15	α = 90
b = 97.15	β = 90
c = 312.39	γ = 90

Symmetry
Space Group	P 41 21 2

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	DECTRIS PILATUS 6M-F		2015-10-25	M	SINGLE WAVELENGTH

Radiation Source
ID #	Source	Type	Wavelength List	Synchrotron Site	Beamline
1	SYNCHROTRON	APS BEAMLINE 24-ID-C	0.97930	APS	24-ID-C

Data Collection

Overall
ID #	Resolution (High)	Resolution (Low)	Percent Possible (Observed)	R Merge I (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	3.59	104.13	99.6	0.183	1	9	12.5		18347			109.88

Highest Resolution Shell
ID #	Resolution (High)	Resolution (Low)	Percent Possible (All)	Percent Possible (Observed)	R Merge I (Observed)	CC (Half)	Mean I Over Sigma (Observed)	Redundancy	Number Unique Reflections (All)
1	3.59	3.93	98.7		3.722	0.741	1	12.3

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	FREE R-VALUE	4ZPL, 4ZPM, 4ZPO, 4ZPS, 5DZV, 5DZX, 4ZI9, 4ZI8, 5ZSM, and 5SZN	3.612	19.93	1.36	11902	576	66.6	0.244	0.2421	0.27	0.2787	0.28

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	13.268
f_angle_d	0.588
f_chiral_restr	0.042
f_plane_restr	0.004
f_bond_d	0.003

Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms	Number
Protein Atoms	6164
Nucleic Acid Atoms
Solvent Atoms
Heterogen Atoms	129

Software

Software
Software Name	Purpose
PHENIX	refinement
XDS	data reduction
Aimless	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.