23MG | pdb_000023mg

X-RAY DIFFRACTION

Initial Refinement Model(s)
Type	Source	Accession Code	Details
experimental model	PDB	7VH8

Crystalization Experiments
ID	Method	pH	Temperature	Details
1	VAPOR DIFFUSION, SITTING DROP		289	0.2 M Ammonium sulfate, 0.1 M Tris pH 8.5, 25% w/v Polyethylene glycol 3,350

Crystal Properties
Matthews coefficient	Solvent content
2.09	41.07

Symmetry
Space Group	P 1 21 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		2024-09-08	M	SINGLE WAVELENGTH

Radiation Source
ID #	Source	Type	Wavelength List	Synchrotron Site	Beamline
1	SYNCHROTRON	SSRF BEAMLINE BL19U1	0.97923	SSRF	BL19U1

Overall
ID #	Resolution (High)	Resolution (Low)	Percent Possible (Observed)	R Merge I (Observed)	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	53.53	91.6	0.188	0.991	7.3	6.3		33515

Highest Resolution Shell
ID #	Resolution (High)	Resolution (Low)	Percent Possible (All)	Percent Possible (Observed)	R Merge I (Observed)	CC (Half)	Mean I Over Sigma (Observed)	Redundancy	Number Unique Reflections (All)
1	2	2.05			1.221	0.619	2

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	2	53.529	33427	1714	91.473	0.187	0.1842	0.191	0.2389	0.2464	30.893

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]
0.821		0.5	-0.066		-0.891

RMS Deviations
Key	Refinement Restraint Deviation
r_dihedral_angle_2_deg	23.208
r_dihedral_angle_6_deg	14.666
r_dihedral_angle_3_deg	13.596
r_lrange_it	8.669
r_lrange_other	8.66
r_dihedral_angle_1_deg	7.11
r_scangle_it	5.473
r_scangle_other	5.472
r_mcangle_it	4.448
r_mcangle_other	4.448

RMS Deviations
Key	Refinement Restraint Deviation
r_dihedral_angle_2_deg	23.208
r_dihedral_angle_6_deg	14.666
r_dihedral_angle_3_deg	13.596
r_lrange_it	8.669
r_lrange_other	8.66
r_dihedral_angle_1_deg	7.11
r_scangle_it	5.473
r_scangle_other	5.472
r_mcangle_it	4.448
r_mcangle_other	4.448
r_scbond_it	3.661
r_scbond_other	3.66
r_mcbond_it	2.985
r_mcbond_other	2.974
r_dihedral_angle_other_3_deg	1.889
r_angle_refined_deg	1.521
r_angle_other_deg	0.522
r_nbd_other	0.243
r_symmetry_xyhbond_nbd_refined	0.222
r_nbd_refined	0.209
r_symmetry_nbd_refined	0.204
r_symmetry_nbd_other	0.196
r_nbtor_refined	0.182
r_xyhbond_nbd_refined	0.145
r_symmetry_nbtor_other	0.085
r_ncsr_local_group_1	0.084
r_chiral_restr	0.075
r_symmetry_xyhbond_nbd_other	0.045
r_bond_refined_d	0.008
r_gen_planes_refined	0.007
r_bond_other_d	0.002
r_gen_planes_other	0.001

Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms	Number
Protein Atoms	4621
Nucleic Acid Atoms
Solvent Atoms	239
Heterogen Atoms	204

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.