9TZM | pdb_00009tzm

X-RAY DIFFRACTION

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

Crystalization Experiments
ID	Method	pH	Temperature	Details
1	VAPOR DIFFUSION, SITTING DROP		293	0.2MMagnesium chloride hexahydrate 0.1MBis-Tris 5.525% w/v PEG 3350

Crystal Properties
Matthews coefficient	Solvent content
2.85	56.83

Symmetry
Space Group	P 31 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 EIGER2 X 16M		2025-09-16	M	SINGLE WAVELENGTH

Radiation Source
ID #	Source	Type	Wavelength List	Synchrotron Site	Beamline
1	SYNCHROTRON	ESRF BEAMLINE ID30B	0.87313	ESRF	ID30B

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	2.9	94.1	100	0.455	0.482	0.159	0.995	7.7	16.8		7143

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)
	2.9	3.08	100		5.713	6.047	1.978	0.38	1.1	17.4

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	2.901	53.439	7119	334	99.986	0.216	0.2123	0.2126	0.2879	0.2894	RANDOM	92.186

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]
-0.984	-0.492		-0.984		3.193

RMS Deviations
Key	Refinement Restraint Deviation
r_dihedral_angle_2_deg	21.151
r_lrange_it	19.978
r_dihedral_angle_3_deg	18.861
r_scangle_it	16.187
r_dihedral_angle_6_deg	14.643
r_mcangle_it	12.603
r_scbond_it	10.696
r_dihedral_angle_1_deg	9.404
r_mcbond_it	8.182
r_angle_refined_deg	2.344

RMS Deviations
Key	Refinement Restraint Deviation
r_dihedral_angle_2_deg	21.151
r_lrange_it	19.978
r_dihedral_angle_3_deg	18.861
r_scangle_it	16.187
r_dihedral_angle_6_deg	14.643
r_mcangle_it	12.603
r_scbond_it	10.696
r_dihedral_angle_1_deg	9.404
r_mcbond_it	8.182
r_angle_refined_deg	2.344
r_nbtor_refined	0.285
r_xyhbond_nbd_refined	0.223
r_ncsr_local_group_1	0.196
r_symmetry_nbd_refined	0.185
r_nbd_refined	0.182
r_chiral_restr	0.16
r_symmetry_xyhbond_nbd_refined	0.103
r_gen_planes_refined	0.008
r_bond_refined_d	0.007

Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms	Number
Protein Atoms	1818
Nucleic Acid Atoms
Solvent Atoms	5
Heterogen Atoms	41

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.