Experiment: 9N8V

X-RAY DIFFRACTION

Initial Refinement Model(s)
Type	Source	Accession Code	Details
experimental model	PDB	2R6S

Crystalization Experiments
ID	Method	pH	Temperature	Details
1	VAPOR DIFFUSION, SITTING DROP		295	0.15 M Potassium chloride, 25 % v/v Glycerol, 0.05 M Bis-Tris pH 7, 1.6 M Ammonium sulfate

Crystal Properties
Matthews coefficient	Solvent content
2.79	55.91

Symmetry
Space Group	I 4 2 2

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 EIGER X 9M		2024-10-10	M	SINGLE WAVELENGTH

Radiation Source
ID #	Source	Type	Wavelength List	Synchrotron Site	Beamline
1	SYNCHROTRON	NSLS-II BEAMLINE 17-ID-1	0.920194	NSLS-II	17-ID-1

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	1.78	34.13	100	0.189	0.196	0.052	0.999	15.9	27.1		42058

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	1.78	1.82	100		2.749	2.854	0.768	0.334		26.5

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)	R-Free Selection Details	Mean Isotropic B
X-RAY DIFFRACTION	MOLECULAR REPLACEMENT	FREE R-VALUE	1.78	34.126	42051	2099	99.948	0.203	0.2017	0.2018	0.2248	0.2249	RANDOM	35.808

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]
-0.444			-0.444		0.888

RMS Deviations
Key	Refinement Restraint Deviation
r_dihedral_angle_6_deg	13.997
r_dihedral_angle_3_deg	12.765
r_dihedral_angle_2_deg	11.065
r_lrange_it	9.495
r_scangle_it	7.763
r_dihedral_angle_1_deg	6.2
r_scbond_it	5.313
r_mcangle_it	4.586
r_mcbond_it	3.235
r_angle_refined_deg	1.845

RMS Deviations
Key	Refinement Restraint Deviation
r_dihedral_angle_6_deg	13.997
r_dihedral_angle_3_deg	12.765
r_dihedral_angle_2_deg	11.065
r_lrange_it	9.495
r_scangle_it	7.763
r_dihedral_angle_1_deg	6.2
r_scbond_it	5.313
r_mcangle_it	4.586
r_mcbond_it	3.235
r_angle_refined_deg	1.845
r_nbtor_refined	0.314
r_symmetry_nbd_refined	0.214
r_nbd_refined	0.201
r_symmetry_xyhbond_nbd_refined	0.147
r_xyhbond_nbd_refined	0.125
r_chiral_restr	0.124
r_bond_refined_d	0.01
r_gen_planes_refined	0.009

Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms	Number
Protein Atoms	2331
Nucleic Acid Atoms	82
Solvent Atoms	171
Heterogen Atoms	23

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.

9N8V | pdb_00009n8v