Experiment: 9Q8P

X-RAY DIFFRACTION

Initial Refinement Model(s)
Type	Source	Accession Code	Details
experimental model	PDB	3KCW

Crystalization Experiments
ID	Method	pH	Temperature	Details
1	VAPOR DIFFUSION, SITTING DROP		298	0.09 M NPS (0.3M Sodium nitrate, 0.3 Sodium phosphate dibasic, 0.3M Ammonium sulfate), 0.1M buffer system 1 pH 6.5 (1M imidazole, 1M MES monohydrate) 30 % v/v Precipitant Mix 3 (40% v/v Glycerol; 20% w/v PEG 4000)

Symmetry
Space Group	P 31 2 1

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 EIGER2 X 16M		2023-06-05	M	SINGLE WAVELENGTH

Radiation Source
ID #	Source	Type	Wavelength List	Synchrotron Site	Beamline
1	SYNCHROTRON	PETRA III, DESY BEAMLINE P11	1.0332	PETRA III, DESY	P11

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	2.13	50.6	99.8	0.061	0.999	15.7	11		29993

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	2.13	2.19	100		0.933	2.1	11.2

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	THROUGHOUT	2.13	50.6	29928	1526	99.757	0.231	0.2295	0.2299	0.266	0.2673	67.113

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]
2.333	1.166		2.333		-7.568

RMS Deviations
Key	Refinement Restraint Deviation
r_dihedral_angle_6_deg	15.941
r_dihedral_angle_3_deg	15.166
r_dihedral_angle_2_deg	13.787
r_lrange_it	12.88
r_scangle_it	10.781
r_scbond_it	9.127
r_mcangle_it	8.83
r_dihedral_angle_1_deg	8.485
r_mcbond_it	6.848
r_angle_refined_deg	2.006

RMS Deviations
Key	Refinement Restraint Deviation
r_dihedral_angle_6_deg	15.941
r_dihedral_angle_3_deg	15.166
r_dihedral_angle_2_deg	13.787
r_lrange_it	12.88
r_scangle_it	10.781
r_scbond_it	9.127
r_mcangle_it	8.83
r_dihedral_angle_1_deg	8.485
r_mcbond_it	6.848
r_angle_refined_deg	2.006
r_symmetry_xyhbond_nbd_refined	0.467
r_nbtor_refined	0.328
r_nbd_refined	0.243
r_symmetry_nbd_refined	0.193
r_xyhbond_nbd_refined	0.15
r_chiral_restr	0.127
r_gen_planes_refined	0.011
r_bond_refined_d	0.008

Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms	Number
Protein Atoms	1832
Nucleic Acid Atoms
Solvent Atoms	12
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.

9Q8P | pdb_00009q8p