Experiment: 9EX5

X-RAY DIFFRACTION

Initial Refinement Model(s)
Type	Source	Accession Code	Details
experimental model	PDB	9EXF

Crystalization Experiments
ID	Method	pH	Temperature	Details
1	VAPOR DIFFUSION, SITTING DROP	9	292	10 %(w/v) PEG 1000 10 %(w/v) PEG 8000

Crystal Properties
Matthews coefficient	Solvent content
2.77	55.67

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	196	PIXEL	DECTRIS EIGER2 X 16M		2020-05-19	M	SINGLE WAVELENGTH

Radiation Source
ID #	Source	Type	Wavelength List	Synchrotron Site	Beamline
1	SYNCHROTRON	PETRA III, EMBL c/o DESY BEAMLINE P14 (MX2)	0.9763	PETRA III, EMBL c/o DESY	P14 (MX2)

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	2.01	142.76	95.9	0.12	0.13	0.049	0.999	15.1	12.9		93922

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	2.01	2.05			0.692	0.871	0.517	0.533		3.5

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)	Mean Isotropic B
X-RAY DIFFRACTION	MOLECULAR REPLACEMENT	FREE R-VALUE	2.011	71.484	93850	4607	95.872	0.184	0.1819	0.1829	0.2146	0.2166	42.867

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]
1.351			1.152		-2.503

RMS Deviations
Key	Refinement Restraint Deviation
r_dihedral_angle_2_deg	18.346
r_dihedral_angle_6_deg	13.745
r_dihedral_angle_3_deg	12.065
r_dihedral_angle_1_deg	6.795
r_lrange_it	6.548
r_lrange_other	6.501
r_scangle_it	5.237
r_scangle_other	5.236
r_scbond_it	3.429
r_scbond_other	3.428

RMS Deviations
Key	Refinement Restraint Deviation
r_dihedral_angle_2_deg	18.346
r_dihedral_angle_6_deg	13.745
r_dihedral_angle_3_deg	12.065
r_dihedral_angle_1_deg	6.795
r_lrange_it	6.548
r_lrange_other	6.501
r_scangle_it	5.237
r_scangle_other	5.236
r_scbond_it	3.429
r_scbond_other	3.428
r_mcangle_it	2.968
r_mcangle_other	2.967
r_mcbond_it	2.149
r_mcbond_other	2.149
r_angle_refined_deg	1.428
r_angle_other_deg	0.458
r_nbd_other	0.247
r_nbd_refined	0.185
r_symmetry_nbd_other	0.185
r_symmetry_xyhbond_nbd_refined	0.175
r_nbtor_refined	0.168
r_xyhbond_nbd_refined	0.161
r_symmetry_nbd_refined	0.132
r_symmetry_nbtor_other	0.082
r_ncsr_local_group_2	0.079
r_ncsr_local_group_1	0.075
r_ncsr_local_group_3	0.067
r_chiral_restr	0.065
r_bond_refined_d	0.007
r_gen_planes_refined	0.006
r_bond_other_d	0.001
r_chiral_restr_other	0.001
r_gen_planes_other	0.001

Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms	Number
Protein Atoms	8901
Nucleic Acid Atoms
Solvent Atoms	604
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.

9EX5 | pdb_00009ex5