Experiment: 9VV8

X-RAY DIFFRACTION

Initial Refinement Model(s)
Type	Source	Accession Code	Details
experimental model	PDB	6GQF

Crystalization Experiments
ID	Method	pH	Temperature	Details
1	VAPOR DIFFUSION, HANGING DROP		291	0.1 M Bicine & Tris (pH 8.5), 12.5% MPD, 12.5% PEG1000, and 12% PEG3350.

Crystal Properties
Matthews coefficient	Solvent content
2.08	40.91

Symmetry
Space Group	C 2 2 21

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		2021-09-22	M	SINGLE WAVELENGTH

Radiation Source
ID #	Source	Type	Wavelength List	Synchrotron Site	Beamline
1	SYNCHROTRON	SSRF BEAMLINE BL18U1	0.987	SSRF	BL18U1

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	1.7	50	98.3	0.065	0.996	28.53	8.2		19927

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	1.7	1.76			0.896

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 (All)	R-Work (Depositor)	R-Work (DCC)	R-Free (Depositor)	R-Free (DCC)	Mean Isotropic B
X-RAY DIFFRACTION	MOLECULAR REPLACEMENT	FREE R-VALUE	1.704	31.812	19907	910	98.248	0.198	0.1964	0.2062	0.2325	0.2397	32.035

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]
0.521			1.338		-1.859

RMS Deviations
Key	Refinement Restraint Deviation
r_dihedral_angle_6_deg	15.557
r_lrange_other	14.281
r_lrange_it	14.272
r_dihedral_angle_3_deg	13.081
r_scangle_it	8.556
r_scangle_other	8.552
r_dihedral_angle_1_deg	6.706
r_dihedral_angle_2_deg	5.987
r_mcangle_it	5.677
r_mcangle_other	5.676

RMS Deviations
Key	Refinement Restraint Deviation
r_dihedral_angle_6_deg	15.557
r_lrange_other	14.281
r_lrange_it	14.272
r_dihedral_angle_3_deg	13.081
r_scangle_it	8.556
r_scangle_other	8.552
r_dihedral_angle_1_deg	6.706
r_dihedral_angle_2_deg	5.987
r_mcangle_it	5.677
r_mcangle_other	5.676
r_scbond_it	5.556
r_scbond_other	5.553
r_mcbond_it	3.818
r_mcbond_other	3.818
r_angle_refined_deg	1.59
r_angle_other_deg	0.57
r_symmetry_nbd_other	0.204
r_nbd_other	0.193
r_nbtor_refined	0.183
r_nbd_refined	0.178
r_xyhbond_nbd_refined	0.133
r_symmetry_nbd_refined	0.096
r_symmetry_nbtor_other	0.084
r_chiral_restr	0.082
r_symmetry_xyhbond_nbd_refined	0.08
r_bond_refined_d	0.01
r_gen_planes_refined	0.008
r_bond_other_d	0.002
r_ext_dist_refined_b	0.001
r_gen_planes_other	0.001

Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms	Number
Protein Atoms	1463
Nucleic Acid Atoms
Solvent Atoms	91
Heterogen Atoms

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. RCSB PDB uses resources of the National Energy Research Scientific Computing Center (NERSC), a Department of Energy User Facility.

9VV8 | pdb_00009vv8