Experiment: 9S75

X-RAY DIFFRACTION

Initial Refinement Model(s)
Type	Source	Accession Code	Details
experimental model	PDB	9S74

Crystalization Experiments
ID	Method	pH	Temperature	Details
1	VAPOR DIFFUSION, HANGING DROP		293	0.15M ammonium iodide, 20% PEG 3350

Crystal Properties
Matthews coefficient	Solvent content
2.16	43.09

Symmetry
Space Group	C 1 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 PILATUS3 6M		2025-03-15	M	SINGLE WAVELENGTH

Radiation Source
ID #	Source	Type	Wavelength List	Synchrotron Site	Beamline
1	SYNCHROTRON	BESSY BEAMLINE 14.1	1.8	BESSY	14.1

Overall
ID #	Resolution (High)	Resolution (Low)	Percent Possible (Observed)	R Sym 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	1.8	45.26	93.9	0.077	0.093	0.051	0.997	10.1	5.6		78159		-3	16.44

Highest Resolution Shell
ID #	Resolution (High)	Resolution (Low)	Percent Possible (All)	Percent Possible (Observed)	R-Sym I (Observed)	Rrim I (All)	Rpim I (All)	CC (Half)	Mean I Over Sigma (Observed)	Redundancy	Number Unique Reflections (All)
1	1.8	1.84	50.4		0.307	0.416	0.279	0.627	2.5	3.1

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	1.8	45.26	78158	3876	93.916	0.222	0.2195	0.2178	0.2616	0.261	28.753

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]
1.154		0.285	-1.963		0.732

RMS Deviations
Key	Refinement Restraint Deviation
r_dihedral_angle_6_deg	15.262
r_dihedral_angle_3_deg	14.133
r_dihedral_angle_2_deg	8.762
r_lrange_it	7.272
r_lrange_other	7.226
r_dihedral_angle_1_deg	6.918
r_rigid_bond_restr	4.265
r_scangle_it	4.179
r_scangle_other	4.178
r_mcangle_it	3.5

RMS Deviations
Key	Refinement Restraint Deviation
r_dihedral_angle_6_deg	15.262
r_dihedral_angle_3_deg	14.133
r_dihedral_angle_2_deg	8.762
r_lrange_it	7.272
r_lrange_other	7.226
r_dihedral_angle_1_deg	6.918
r_rigid_bond_restr	4.265
r_scangle_it	4.179
r_scangle_other	4.178
r_mcangle_it	3.5
r_mcangle_other	3.5
r_scbond_it	2.754
r_scbond_other	2.753
r_mcbond_it	2.223
r_mcbond_other	2.222
r_angle_refined_deg	1.928
r_angle_other_deg	0.655
r_symmetry_xyhbond_nbd_refined	0.454
r_xyhbond_nbd_other	0.397
r_symmetry_nbd_refined	0.327
r_nbd_other	0.282
r_nbd_refined	0.201
r_xyhbond_nbd_refined	0.197
r_symmetry_nbd_other	0.193
r_nbtor_refined	0.173
r_metal_ion_refined	0.126
r_symmetry_xyhbond_nbd_other	0.112
r_chiral_restr	0.096
r_symmetry_nbtor_other	0.088
r_ncsr_local_group_3	0.066
r_ncsr_local_group_8	0.066
r_ncsr_local_group_6	0.062
r_ncsr_local_group_7	0.062
r_ncsr_local_group_1	0.06
r_ncsr_local_group_10	0.06
r_ncsr_local_group_9	0.059
r_ncsr_local_group_4	0.058
r_ncsr_local_group_2	0.056
r_ncsr_local_group_5	0.045
r_ext_dist_refined_b	0.019
r_bond_refined_d	0.013
r_gen_planes_refined	0.009
r_bond_other_d	0.001
r_gen_planes_other	0.001

Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms	Number
Protein Atoms	7745
Nucleic Acid Atoms
Solvent Atoms	439
Heterogen Atoms	123

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.

9S75 | pdb_00009s75