9T7G | pdb_00009t7g

X-RAY DIFFRACTION

Initial Refinement Model(s)
Type	Source	Accession Code	Details
experimental model	PDB	9T4Y

Crystalization Experiments
ID	Method	pH	Temperature	Details
1	VAPOR DIFFUSION, HANGING DROP	6	278	MgSO4, MES, NaCl, ethylene glycol

Crystal Properties
Matthews coefficient	Solvent content
2.7	54.5

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 PILATUS3 6M		2025-04-29	M	SINGLE WAVELENGTH

Radiation Source
ID #	Source	Type	Wavelength List	Synchrotron Site	Beamline
1	SYNCHROTRON	PETRA III, EMBL c/o DESY BEAMLINE P14 (MX2)	0.9763	PETRA III, EMBL c/o DESY	P14 (MX2)

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	1.8	49.047	99.9	0.108	0.112	0.031	0.999	13.4	13		55555			33.582

Highest Resolution Shell
ID #	Resolution (High)	Resolution (Low)	Percent Possible (All)	Percent Possible (Observed)	R Merge I (Observed)	Rpim I (All)	CC (Half)	Mean I Over Sigma (Observed)	Redundancy	Number Unique Reflections (All)
1	1.8	1.9	99.6		1.46	0.48	0.555	1.2	9.9

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	49.047	55473	2742	99.894	0.196	0.1943	0.2021	0.2375	0.2444	34.415

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]
0.202			-1.503		1.301

RMS Deviations
Key	Refinement Restraint Deviation
r_dihedral_angle_2_deg	30.396
r_dihedral_angle_4_deg	18.433
r_dihedral_angle_3_deg	12.546
r_dihedral_angle_1_deg	7.527
r_lrange_it	6.881
r_lrange_other	6.881
r_scangle_it	5.632
r_scangle_other	5.631
r_scbond_it	3.823
r_scbond_other	3.822

RMS Deviations
Key	Refinement Restraint Deviation
r_dihedral_angle_2_deg	30.396
r_dihedral_angle_4_deg	18.433
r_dihedral_angle_3_deg	12.546
r_dihedral_angle_1_deg	7.527
r_lrange_it	6.881
r_lrange_other	6.881
r_scangle_it	5.632
r_scangle_other	5.631
r_scbond_it	3.823
r_scbond_other	3.822
r_mcangle_it	3.442
r_mcangle_other	3.442
r_mcbond_it	2.615
r_mcbond_other	2.612
r_angle_refined_deg	1.584
r_angle_other_deg	1.307
r_nbd_refined	0.2
r_symmetry_nbd_refined	0.198
r_nbd_other	0.192
r_metal_ion_refined	0.182
r_symmetry_nbd_other	0.173
r_nbtor_refined	0.166
r_symmetry_xyhbond_nbd_refined	0.156
r_xyhbond_nbd_refined	0.137
r_symmetry_nbtor_other	0.079
r_chiral_restr	0.07
r_bond_refined_d	0.01
r_gen_planes_refined	0.008
r_bond_other_d	0.001
r_gen_planes_other	0.001

Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms	Number
Protein Atoms	3832
Nucleic Acid Atoms
Solvent Atoms	327
Heterogen Atoms	170

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.