Experiment: 9THW

X-RAY DIFFRACTION

Initial Refinement Model(s)
Type	Source	Accession Code	Details
experimental model	PDB	7AN1

Crystalization Experiments
ID	Method	pH	Temperature	Details
1	VAPOR DIFFUSION, SITTING DROP		293	40% MPD, 5% PEG 8000, 100mM Sodium Cacodylate pH 6.5

Crystal Properties
Matthews coefficient	Solvent content
3.06	59.78

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		2025-11-21	M	SINGLE WAVELENGTH

Radiation Source
ID #	Source	Type	Wavelength List	Synchrotron Site	Beamline
1	SYNCHROTRON	DIAMOND BEAMLINE I04	0.7601	Diamond	I04

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	1.4	51.56	100	0.105	0.114	0.042	0.999	10	13.7		132964

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)
	1.4	1.42	100		3.83	4.144	1.575	0.501	0.7	13.4

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	1.4	51.56	132870	6597	99.995	0.132	0.1308	0.1278	0.157	0.1544	RANDOM	24.043

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]
-0.779			1.036		-0.257

RMS Deviations
Key	Refinement Restraint Deviation
r_dihedral_angle_6_deg	15.947
r_lrange_it	13.968
r_lrange_other	13.237
r_dihedral_angle_3_deg	12.905
r_scangle_it	11.588
r_scangle_other	11.486
r_rigid_bond_restr	9.523
r_scbond_it	8.484
r_scbond_other	8.431
r_mcangle_other	7.557

RMS Deviations
Key	Refinement Restraint Deviation
r_dihedral_angle_6_deg	15.947
r_lrange_it	13.968
r_lrange_other	13.237
r_dihedral_angle_3_deg	12.905
r_scangle_it	11.588
r_scangle_other	11.486
r_rigid_bond_restr	9.523
r_scbond_it	8.484
r_scbond_other	8.431
r_mcangle_other	7.557
r_mcangle_it	7.533
r_dihedral_angle_1_deg	6.944
r_dihedral_angle_2_deg	6.477
r_mcbond_it	5.515
r_mcbond_other	5.51
r_angle_refined_deg	1.82
r_angle_other_deg	0.62
r_nbd_refined	0.211
r_symmetry_nbd_other	0.203
r_symmetry_xyhbond_nbd_refined	0.2
r_nbtor_refined	0.186
r_nbd_other	0.18
r_xyhbond_nbd_refined	0.172
r_metal_ion_refined	0.105
r_chiral_restr	0.098
r_symmetry_nbd_refined	0.087
r_symmetry_nbtor_other	0.086
r_gen_planes_other	0.022
r_bond_refined_d	0.011
r_gen_planes_refined	0.011
r_bond_other_d

Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms	Number
Protein Atoms	3869
Nucleic Acid Atoms
Solvent Atoms	457
Heterogen Atoms	42

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.

9THW | pdb_00009thw