Experiment: 9TXW

X-RAY DIFFRACTION

Initial Refinement Model(s)
Type	Source	Accession Code	Details
experimental model	PDB	PDB_00007OJO

Crystalization Experiments
ID	Method	pH	Temperature	Details
1	VAPOR DIFFUSION, SITTING DROP	8.5	277	22% (w/v) PEG 3350, 0.2 M lithium sulfate, 0.1 M Tris, 1% (v/v) DMSO, 1 mM inhibitor

Crystal Properties
Matthews coefficient	Solvent content
2.41	49

Symmetry
Space Group	P 21 21 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 EIGER2 XE 16M		2023-06-23	M	SINGLE WAVELENGTH

Radiation Source
ID #	Source	Type	Wavelength List	Synchrotron Site	Beamline
1	SYNCHROTRON	DIAMOND BEAMLINE I04	0.95374	Diamond	I04

Overall
ID #	Resolution (High)	Resolution (Low)	Percent Possible (Observed)	R Merge I (Observed)	Rrim 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	2.3	74.455	99.9	0.348	0.352	0.998	13.29	40.3		22048			38.2

Highest Resolution Shell
ID #	Resolution (High)	Resolution (Low)	Percent Possible (All)	Percent Possible (Observed)	R Merge I (Observed)	Rrim I (All)	CC (Half)	Mean I Over Sigma (Observed)	Redundancy	Number Unique Reflections (All)
1	2.3	2.36	100		1.988	2.014	0.837	2.05	39.8

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	2.3	74.455	22048	2204	99.873	0.206	0.2023	0.2089	0.2413	0.2426	Random selection	42.687

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]
1.917			1.086		-3.003

RMS Deviations
Key	Refinement Restraint Deviation
r_dihedral_angle_6_deg	13.472
r_dihedral_angle_3_deg	12.112
r_lrange_other	10.559
r_lrange_it	10.553
r_dihedral_angle_2_deg	7.781
r_scangle_it	7.526
r_scangle_other	7.525
r_dihedral_angle_1_deg	6.662
r_mcangle_it	5.721
r_mcangle_other	5.712

RMS Deviations
Key	Refinement Restraint Deviation
r_dihedral_angle_6_deg	13.472
r_dihedral_angle_3_deg	12.112
r_lrange_other	10.559
r_lrange_it	10.553
r_dihedral_angle_2_deg	7.781
r_scangle_it	7.526
r_scangle_other	7.525
r_dihedral_angle_1_deg	6.662
r_mcangle_it	5.721
r_mcangle_other	5.712
r_scbond_it	4.665
r_scbond_other	4.663
r_mcbond_it	3.586
r_mcbond_other	3.574
r_angle_refined_deg	1.459
r_angle_other_deg	0.521
r_nbd_other	0.284
r_dihedral_angle_other_2_deg	0.255
r_nbd_refined	0.204
r_symmetry_nbd_other	0.194
r_nbtor_refined	0.183
r_symmetry_nbd_refined	0.177
r_xyhbond_nbd_refined	0.122
r_ncsr_local_group_2	0.103
r_symmetry_xyhbond_nbd_refined	0.087
r_symmetry_nbtor_other	0.078
r_chiral_restr	0.067
r_ncsr_local_group_1	0.056
r_ncsr_local_group_3	0.019
r_bond_refined_d	0.006
r_gen_planes_refined	0.006
r_bond_other_d	0.002
r_gen_planes_other	0.002

Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms	Number
Protein Atoms	3250
Nucleic Acid Atoms
Solvent Atoms	57
Heterogen Atoms	115

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.

9TXW | pdb_00009txw