Experiment: 8T3I

X-RAY DIFFRACTION

Initial Refinement Model(s)
Type	Source	Accession Code	Details
experimental model	PDB	5C2Z

Crystalization Experiments
ID	Method	pH	Temperature	Details
1	VAPOR DIFFUSION, HANGING DROP	8.5	291	0.2 M MgCl2; 0.1 M Tris-HCl pH 8.5 and 30% w/v PEG 4000 with the addition of 0.1 M Sarcosine

Crystal Properties
Matthews coefficient	Solvent content
2.02	38.97

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 PILATUS 2M		2020-12-14	M	SINGLE WAVELENGTH

Radiation Source
ID #	Source	Type	Wavelength List	Synchrotron Site	Beamline
1	SYNCHROTRON	LNLS SIRIUS BEAMLINE MANACA	1.323630	LNLS SIRIUS	MANACA

Overall
ID #	Resolution (High)	Resolution (Low)	Percent Possible (Observed)	R Merge I (Observed)	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	1.57	39.553	99.9	0.06174	0.02589	0.999	15.17	6.5		63061

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	1.57	1.626			0.06174	0.5632	0.506	1.14

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	1.57	39.553	63061	3153	99.894	0.183	0.1813	0.19	0.2229	0.23	27.023

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]
-1.512		0.232	1.167		0.303

RMS Deviations
Key	Refinement Restraint Deviation
r_dihedral_angle_6_deg	15.779
r_dihedral_angle_3_deg	14.362
r_lrange_other	8.385
r_lrange_it	8.378
r_scangle_it	7.415
r_scangle_other	7.413
r_dihedral_angle_1_deg	7.158
r_dihedral_angle_2_deg	6.904
r_scbond_it	5.124
r_scbond_other	5.123

RMS Deviations
Key	Refinement Restraint Deviation
r_dihedral_angle_6_deg	15.779
r_dihedral_angle_3_deg	14.362
r_lrange_other	8.385
r_lrange_it	8.378
r_scangle_it	7.415
r_scangle_other	7.413
r_dihedral_angle_1_deg	7.158
r_dihedral_angle_2_deg	6.904
r_scbond_it	5.124
r_scbond_other	5.123
r_mcangle_other	4.351
r_mcangle_it	4.35
r_mcbond_it	3.336
r_mcbond_other	3.336
r_angle_refined_deg	2.152
r_angle_other_deg	0.699
r_nbd_refined	0.213
r_symmetry_xyhbond_nbd_refined	0.212
r_symmetry_nbd_other	0.203
r_xyhbond_nbd_refined	0.194
r_nbtor_refined	0.187
r_nbd_other	0.137
r_symmetry_nbd_refined	0.12
r_chiral_restr	0.107
r_symmetry_nbtor_other	0.089
r_bond_refined_d	0.015
r_gen_planes_refined	0.014
r_symmetry_xyhbond_nbd_other	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	3711
Nucleic Acid Atoms
Solvent Atoms	283
Heterogen Atoms

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.

8T3I | pdb_00008t3i