Experiment: 6TR1

X-RAY DIFFRACTION

Starting Model(s)

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

Crystallization

Crystalization Experiments
ID	Method	pH	Temperature	Details
1	VAPOR DIFFUSION	6.5	278	Ammonium sulfate, potassium nitrate

Crystal Data

Unit Cell
Length ( Å )	Angle ( ˚ )
a = 94.8	α = 90
b = 94.8	β = 90
c = 160.22	γ = 120

Symmetry
Space Group	H 3

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		2019-10-17	M	SINGLE WAVELENGTH

Radiation Source
ID #	Source	Type	Wavelength List	Synchrotron Site	Beamline
1	SYNCHROTRON	PETRA III, EMBL c/o DESY BEAMLINE P13 (MX1)	0.97626	PETRA III, EMBL c/o DESY	P13 (MX1)

Data Collection

Overall
ID #	Resolution (High)	Resolution (Low)	Percent Possible (Observed)	R Sym I (Observed)	Rrim I (All)	Rpim I (All)	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	1.189	73.065	98.5	0.101	0.12	0.064	4.7	3.1	170023	170023

Highest Resolution Shell
ID #	Resolution (High)	Resolution (Low)	Percent Possible (All)	Percent Possible (Observed)	R Merge I (Observed)	R-Sym I (Observed)	Rrim I (All)	Rpim I (All)	Mean I Over Sigma (Observed)	Redundancy	Number Unique Reflections (All)
1	1.19	1.25	98.7		1.555	1.555	1.873	1.026	0.5	3.1

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	4EIC	1.7	36.53	55146	2864	98.22	0.1868	0.1857	0.2	0.2078	0.22	RANDOM	21.067

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]
3.3			3.3		-6.59

RMS Deviations
Key	Refinement Restraint Deviation
r_dihedral_angle_2_deg	37.698
r_dihedral_angle_4_deg	35.86
r_dihedral_angle_3_deg	16.503
r_dihedral_angle_1_deg	6.36
r_angle_refined_deg	2.804
r_angle_other_deg	1.281
r_chiral_restr	0.207
r_bond_refined_d	0.032
r_gen_planes_refined	0.02
r_gen_planes_other	0.018

RMS Deviations
Key	Refinement Restraint Deviation
r_dihedral_angle_2_deg	37.698
r_dihedral_angle_4_deg	35.86
r_dihedral_angle_3_deg	16.503
r_dihedral_angle_1_deg	6.36
r_angle_refined_deg	2.804
r_angle_other_deg	1.281
r_chiral_restr	0.207
r_bond_refined_d	0.032
r_gen_planes_refined	0.02
r_gen_planes_other	0.018
r_bond_other_d	0.002

Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms	Number
Protein Atoms	1922
Nucleic Acid Atoms
Solvent Atoms	55
Heterogen Atoms	134

Software

Software
Software Name	Purpose
REFMAC	refinement
SCALA	data scaling
PDB_EXTRACT	data extraction
iMOSFLM	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.