Experiment: 8G4A

X-RAY DIFFRACTION

Starting Model(s)

Initial Refinement Model(s)
Type	Source	Accession Code	Details
experimental model	PDB	4EQ1

Crystallization

Crystalization Experiments
ID	Method	pH	Temperature	Details
1	VAPOR DIFFUSION, SITTING DROP	6.5	298	0.1 M MES pH 6.5, 1.6 M magnesium sulfate, 2:1 (protein:condition)

Crystal Properties
Matthews coefficient	Solvent content
3.49	65

Crystal Data

Unit Cell
Length ( Å )	Angle ( ˚ )
a = 80.135	α = 90
b = 80.135	β = 90
c = 100.718	γ = 120

Symmetry
Space Group	P 31 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		2020-12-16	M	SINGLE WAVELENGTH

Radiation Source
ID #	Source	Type	Wavelength List	Synchrotron Site	Beamline
1	SYNCHROTRON	NSLS-II BEAMLINE 19-ID	0.97946	NSLS-II	19-ID

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	69.4	99.76	0.049	0.05186	0.0166	0.998	22.86	10		27007			61.65

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	1.97	2.04	98.15		3.823	0.354

Refinement

Statistics
Diffraction ID	Structure Solution Method	Cross Validation method	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	1.97	69.4	25028	1979	100	0.20583	0.20404	0.21	0.22932	0.23	RANDOM	79.074

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]
-0.12	-0.06		-0.12		0.4

RMS Deviations
Key	Refinement Restraint Deviation
r_dihedral_angle_3_deg	13.39
r_long_range_B_refined	10.56
r_long_range_B_other	10.558
r_scangle_other	8.864
r_dihedral_angle_1_deg	7.974
r_scbond_it	6.366
r_scbond_other	6.363
r_mcangle_it	6.116
r_mcangle_other	6.114
r_mcbond_other	4.899

RMS Deviations
Key	Refinement Restraint Deviation
r_dihedral_angle_3_deg	13.39
r_long_range_B_refined	10.56
r_long_range_B_other	10.558
r_scangle_other	8.864
r_dihedral_angle_1_deg	7.974
r_scbond_it	6.366
r_scbond_other	6.363
r_mcangle_it	6.116
r_mcangle_other	6.114
r_mcbond_other	4.899
r_mcbond_it	4.894
r_angle_refined_deg	1.228
r_angle_other_deg	0.435
r_chiral_restr	0.06
r_bond_refined_d	0.01
r_gen_planes_refined	0.004
r_bond_other_d	0.001
r_gen_planes_other	0.001

Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms	Number
Protein Atoms	1765
Nucleic Acid Atoms
Solvent Atoms	3
Heterogen Atoms	19

Software

Software
Software Name	Purpose
PHENIX	refinement
Blu-Ice	data collection
autoPROC	data reduction
PHASER	phasing
PDB-REDO	refinement
autoPROC	data scaling

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.