9WOI | pdb_00009woi

X-RAY DIFFRACTION

Initial Refinement Model(s)
Type	Source	Accession Code	Details
in silico model	AlphaFold	AF-Q9H479-F1

Crystalization Experiments
ID	Method	pH	Temperature	Details
1	VAPOR DIFFUSION, HANGING DROP	8	291	1.5 M ammonium sulfate, 0.1 M sodium citrate pH 5.0

Crystal Properties
Matthews coefficient	Solvent content
2.78	55.18

Symmetry
Space Group	I 4

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 S 9M		2024-01-13	M	SINGLE WAVELENGTH

Radiation Source
ID #	Source	Type	Wavelength List	Synchrotron Site	Beamline
1	SYNCHROTRON	SSRF BEAMLINE BL02U1	0.97918	SSRF	BL02U1

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	2.238	83.66	99.1	0.251	0.265	0.102	0.994	14.1	13.8		36766

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	2.238	2.31	90.2		1.576	1.71	0.656	0.756		13.3

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-Factor (Observed)	R-Work (Depositor)	R-Work (DCC)	R-Free (Depositor)	R-Free (DCC)	R-Free Selection Details	Mean Isotropic B
X-RAY DIFFRACTION	MOLECULAR REPLACEMENT	THROUGHOUT	2.239	83.655	36745	1831	99.043	0.201	0.2005	0.1979	0.2043	0.252	0.2581	RANDOM	47.761

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]
1.292			1.292		-2.584

RMS Deviations
Key	Refinement Restraint Deviation
r_dihedral_angle_2_deg	16.225
r_dihedral_angle_6_deg	14.344
r_dihedral_angle_3_deg	14.179
r_lrange_it	7.436
r_lrange_other	7.366
r_dihedral_angle_1_deg	6.809
r_scangle_it	4.597
r_scangle_other	4.587
r_mcangle_it	4.282
r_mcangle_other	4.281

RMS Deviations
Key	Refinement Restraint Deviation
r_dihedral_angle_2_deg	16.225
r_dihedral_angle_6_deg	14.344
r_dihedral_angle_3_deg	14.179
r_lrange_it	7.436
r_lrange_other	7.366
r_dihedral_angle_1_deg	6.809
r_scangle_it	4.597
r_scangle_other	4.587
r_mcangle_it	4.282
r_mcangle_other	4.281
r_scbond_it	2.743
r_scbond_other	2.731
r_mcbond_it	2.639
r_mcbond_other	2.639
r_angle_refined_deg	0.977
r_angle_other_deg	0.351
r_nbd_refined	0.212
r_nbd_other	0.2
r_symmetry_xyhbond_nbd_refined	0.199
r_nbtor_refined	0.18
r_symmetry_nbd_other	0.178
r_symmetry_nbd_refined	0.174
r_xyhbond_nbd_refined	0.15
r_symmetry_nbtor_other	0.075
r_chiral_restr	0.047
r_bond_refined_d	0.004
r_gen_planes_refined	0.004
r_bond_other_d	0.001
r_gen_planes_other	0.001

Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms	Number
Protein Atoms	4329
Nucleic Acid Atoms
Solvent Atoms	260
Heterogen Atoms	105

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.