Experiment: 7Y51

X-RAY DIFFRACTION

Serial Crystallography (SX)

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

Crystalization Experiments
ID	Method	pH	Temperature	Details
1	EVAPORATION, RECRYSTALLIZATION	8	293	20 mM Tris-HCl (pH8.0) 100 mM NaCl

Crystal Properties
Matthews coefficient	Solvent content
4.3	71.41

Symmetry
Space Group	I 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		2021-10-16	M	SINGLE WAVELENGTH

Radiation Source
ID #	Source	Type	Wavelength List	Synchrotron Site	Beamline
1	SYNCHROTRON	SPRING-8 BEAMLINE BL45XU	1.0	SPring-8	BL45XU

Sample delivery method
Diffraction ID	Description	Sample Delivery Method
1		fixed target

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	2.45	39.91	99.9	0.17	0.993	14.3	11		14957

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	2.45	2.55			0.912	0.84

Statistics
Diffraction ID	Structure Solution Method	Cross Validation method	Starting model	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	THROUGHOUT	7FBW	2.45	39.91	14956	722	99.906	0.193	0.1907	0.1974	0.2301	0.2327	38.227

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]
0.066			-0.036		-0.03

RMS Deviations
Key	Refinement Restraint Deviation
r_dihedral_angle_2_deg	39.021
r_dihedral_angle_3_deg	21.027
r_dihedral_angle_4_deg	18.244
r_lrange_it	9.89
r_lrange_other	9.89
r_scangle_it	7.727
r_scangle_other	7.724
r_dihedral_angle_1_deg	7.524
r_mcangle_other	6.521
r_mcangle_it	6.507

RMS Deviations
Key	Refinement Restraint Deviation
r_dihedral_angle_2_deg	39.021
r_dihedral_angle_3_deg	21.027
r_dihedral_angle_4_deg	18.244
r_lrange_it	9.89
r_lrange_other	9.89
r_scangle_it	7.727
r_scangle_other	7.724
r_dihedral_angle_1_deg	7.524
r_mcangle_other	6.521
r_mcangle_it	6.507
r_scbond_it	4.99
r_scbond_other	4.987
r_mcbond_it	4.284
r_mcbond_other	4.212
r_angle_refined_deg	1.868
r_angle_other_deg	1.344
r_nbd_refined	0.204
r_symmetry_nbd_other	0.181
r_nbtor_refined	0.173
r_xyhbond_nbd_refined	0.164
r_nbd_other	0.106
r_chiral_restr	0.105
r_symmetry_nbtor_other	0.085
r_symmetry_nbd_refined	0.085
r_bond_refined_d	0.012
r_symmetry_xyhbond_nbd_refined	0.012
r_gen_planes_refined	0.01
r_bond_other_d	0.001
r_gen_planes_other	0.001

Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms	Number
Protein Atoms	1488
Nucleic Acid Atoms
Solvent Atoms	34
Heterogen Atoms	7

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.

7Y51 | pdb_00007y51