9N7L | pdb_00009n7l

X-RAY DIFFRACTION

Initial Refinement Model(s)
Type	Source	Accession Code	Details
experimental model	PDB	2R6S

Crystalization Experiments
ID	Method	pH	Temperature	Details
1	VAPOR DIFFUSION, SITTING DROP		277.15	25 % v/v Glycerol, 0.05 M Bis-Tris pH 7, 1.4 M Ammonium sulfate

Crystal Properties
Matthews coefficient	Solvent content
3.79	67.52

Symmetry
Space Group	P 4 21 2

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 EIGER X 9M		2023-06-16	M	SINGLE WAVELENGTH

Radiation Source
ID #	Source	Type	Wavelength List	Synchrotron Site	Beamline
1	SYNCHROTRON	NSLS-II BEAMLINE 17-ID-1	0.920105	NSLS-II	17-ID-1

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	2.86	147.48	100	0.559	0.621	0.267	0.98	4.8	10		27187

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)
	2.86	3.01	100		5.658	6.265	2.67	0.236	0.5	10.3

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-Work (Depositor)	R-Work (DCC)	R-Free (Depositor)	R-Free (DCC)	Mean Isotropic B
X-RAY DIFFRACTION	MOLECULAR REPLACEMENT	FREE R-VALUE	2.86	147.48	27159	1328	99.967	0.232	0.2301	0.2303	0.2679	0.2661	72.687

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]
-2.442			-2.442		4.885

RMS Deviations
Key	Refinement Restraint Deviation
r_lrange_it	17.656
r_scangle_it	16.242
r_mcangle_it	13.572
r_dihedral_angle_3_deg	12.389
r_scbond_it	12.277
r_dihedral_angle_6_deg	11.855
r_mcbond_it	10.179
r_dihedral_angle_1_deg	6.516
r_dihedral_angle_2_deg	5.267
r_angle_refined_deg	0.991

RMS Deviations
Key	Refinement Restraint Deviation
r_lrange_it	17.656
r_scangle_it	16.242
r_mcangle_it	13.572
r_dihedral_angle_3_deg	12.389
r_scbond_it	12.277
r_dihedral_angle_6_deg	11.855
r_mcbond_it	10.179
r_dihedral_angle_1_deg	6.516
r_dihedral_angle_2_deg	5.267
r_angle_refined_deg	0.991
r_nbtor_refined	0.304
r_nbd_refined	0.218
r_symmetry_nbd_refined	0.21
r_symmetry_xyhbond_nbd_refined	0.204
r_xyhbond_nbd_refined	0.141
r_ncsr_local_group_1	0.088
r_chiral_restr	0.045
r_bond_refined_d	0.006
r_gen_planes_refined	0.003

Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms	Number
Protein Atoms	4689
Nucleic Acid Atoms
Solvent Atoms	26
Heterogen Atoms	26

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.