Experiment: 8JWV

X-RAY DIFFRACTION

Starting Model(s)

Initial Refinement Model(s)
Type	Source	Accession Code	Details
experimental model	PDB	4I1H

Crystallization

Crystalization Experiments
ID	Method	pH	Temperature	Details
1	VAPOR DIFFUSION, SITTING DROP		277	0.1 M HEPES, pH 7.5, 8% PEG 4000, 10% isopropanol, 0.1 M BaCl2

Crystal Properties
Matthews coefficient	Solvent content
2.54	51.49

Crystal Data

Unit Cell
Length ( Å )	Angle ( ˚ )
a = 86.672	α = 90
b = 132.579	β = 90
c = 64.692	γ = 90

Symmetry
Space Group	C 2 2 21

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		2022-10-29	M	SINGLE WAVELENGTH

Radiation Source
ID #	Source	Type	Wavelength List	Synchrotron Site	Beamline
1	SYNCHROTRON	ESRF BEAMLINE ID23-1	0.8856	ESRF	ID23-1

Data Collection

Overall
ID #	Resolution (High)	Resolution (Low)	Percent Possible (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	2.9	64.69	99.4	0.993	11	3.8		8503

Highest Resolution Shell
ID #	Resolution (High)	Resolution (Low)	Percent Possible (All)	Percent Possible (Observed)	CC (Half)	Mean I Over Sigma (Observed)	Redundancy	Number Unique Reflections (All)
1	2.9	3.08			0.924

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 (All)	R-Work	R-Free	Mean Isotropic B
X-RAY DIFFRACTION	MOLECULAR REPLACEMENT	FREE R-VALUE	4I1H	2.9	48.33	8492	434	98.917	0.219	0.217	0.2537	44.299

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]
-3.584			2.942		0.643

RMS Deviations
Key	Refinement Restraint Deviation
r_lrange_it	16.81
r_dihedral_angle_3_deg	15.167
r_dihedral_angle_6_deg	13.726
r_dihedral_angle_2_deg	8.983
r_dihedral_angle_1_deg	7.942
r_scangle_it	7.33
r_mcangle_it	6.037
r_scbond_it	4.959
r_mcbond_it	3.823
r_angle_refined_deg	1.667

RMS Deviations
Key	Refinement Restraint Deviation
r_lrange_it	16.81
r_dihedral_angle_3_deg	15.167
r_dihedral_angle_6_deg	13.726
r_dihedral_angle_2_deg	8.983
r_dihedral_angle_1_deg	7.942
r_scangle_it	7.33
r_mcangle_it	6.037
r_scbond_it	4.959
r_mcbond_it	3.823
r_angle_refined_deg	1.667
r_symmetry_xyhbond_nbd_refined	0.841
r_symmetry_nbd_refined	0.351
r_nbtor_refined	0.309
r_nbd_refined	0.238
r_xyhbond_nbd_refined	0.157
r_chiral_restr	0.074
r_bond_refined_d	0.011
r_gen_planes_refined	0.008

Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms	Number
Protein Atoms	2390
Nucleic Acid Atoms
Solvent Atoms	19
Heterogen Atoms	21

Software

Software
Software Name	Purpose
REFMAC	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 R01GM133198.