Experiment: 6SPJ

X-RAY DIFFRACTION

Starting Model(s)

Initial Refinement Model(s)
Type	Source	Accession Code	Details
experimental model	PDB	1UXM

Crystallization

Crystalization Experiments
ID	Method	pH	Temperature	Details
1	VAPOR DIFFUSION, HANGING DROP	7.6	293	2.6 M Ammonium sulphate, 100 mM Tris-HCl pH 7.6, 150 mM NaCl

Crystal Data

Unit Cell
Length ( Å )	Angle ( ˚ )
a = 112.506	α = 90
b = 194.658	β = 96.97
c = 75.169	γ = 90

Symmetry
Space Group	C 1 2 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	DECTRIS PILATUS 6M-F		2018-10-01	M	SINGLE WAVELENGTH

Radiation Source
ID #	Source	Type	Wavelength List	Synchrotron Site	Beamline
1	SYNCHROTRON	DIAMOND BEAMLINE I04-1	0.9159	Diamond	I04-1

Data Collection

Overall
ID #	Resolution (High)	Resolution (Low)	Percent Possible (Observed)	R Merge I (Observed)	Rrim I (All)	Rpim 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	1.97	97.33	99.2	0.081	0.098	0.054	0.993	6.7	2.9		111785			24.333

Highest Resolution Shell
ID #	Resolution (High)	Resolution (Low)	Percent Possible (All)	Percent Possible (Observed)	R Merge I (Observed)	Rrim I (All)	Rpim I (All)	CC (Half)	Mean I Over Sigma (Observed)	Redundancy	Number Unique Reflections (All)
1	1.97	2	95.5		0.423	0.564	0.37	0.776	1.6	2

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	1UXM	1.97	97.33	106012	5748	99.11	0.1847	0.1825	0.19	0.2252	0.23	RANDOM	30.599

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]
-0.03		0.49	-2.05		1.9

RMS Deviations
Key	Refinement Restraint Deviation
r_dihedral_angle_2_deg	39.128
r_dihedral_angle_1_deg	14.218
r_dihedral_angle_3_deg	12.681
r_dihedral_angle_4_deg	11.503
r_mcangle_it	3.377
r_angle_other_deg	2.426
r_mcbond_it	2.276
r_mcbond_other	2.275
r_angle_refined_deg	1.566
r_chiral_restr	0.066

RMS Deviations
Key	Refinement Restraint Deviation
r_dihedral_angle_2_deg	39.128
r_dihedral_angle_1_deg	14.218
r_dihedral_angle_3_deg	12.681
r_dihedral_angle_4_deg	11.503
r_mcangle_it	3.377
r_angle_other_deg	2.426
r_mcbond_it	2.276
r_mcbond_other	2.275
r_angle_refined_deg	1.566
r_chiral_restr	0.066
r_bond_other_d	0.037
r_bond_refined_d	0.024
r_gen_planes_refined	0.007
r_gen_planes_other	0.007

Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms	Number
Protein Atoms	6666
Nucleic Acid Atoms
Solvent Atoms	1015
Heterogen Atoms	336

Software

Software
Software Name	Purpose
REFMAC	refinement
Aimless	data scaling
PDB_EXTRACT	data extraction
DIALS	data reduction
MOLREP	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.