Experiment: 9I99

X-RAY DIFFRACTION

Initial Refinement Model(s)
Type	Source	Accession Code	Details
experimental model	PDB	1K6F

Crystalization Experiments
ID	Method	pH	Temperature	Details
1	VAPOR DIFFUSION		291	IN a three-well (connected as well#1-well#2-well#3) glass plate: 20 mu-L PPG solution (10mg/mL in acetic acid 10%) in well#1. 150 mu-L Water in well#2 and 150 mu-L monoglyme in well#3. Monoglyme diffuses in well#2 then well#1. Crystals as small cubes in a week.

Crystal Properties
Matthews coefficient	Solvent content
2.06	40.38

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	298	PIXEL	DECTRIS EIGER2 X CdTe 9M		2022-02-15	M	SINGLE WAVELENGTH

Radiation Source
ID #	Source	Type	Wavelength List	Synchrotron Site	Beamline
1	SYNCHROTRON	ESRF BEAMLINE ID27	0.410	ESRF	ID27

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	1.6	25.45	84.5	0.099	0.997	4.4	3.9		28424		1.5

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	1.6	1.64	86.5		0.36	0.949	1.52	4.3

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	1.6	25.449	16711	814	90.826	0.22	0.2184	0.2323	0.2481	0.2642	15.889

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]
-0.567			-0.148		0.714

RMS Deviations
Key	Refinement Restraint Deviation
r_lrange_it	13.976
r_lrange_other	12.21
r_dihedral_angle_1_deg	5.752
r_mcangle_other	5.291
r_mcangle_it	5.282
r_rigid_bond_restr	5.056
r_scangle_it	4.118
r_scangle_other	4.115
r_mcbond_it	3.48
r_mcbond_other	3.452

RMS Deviations
Key	Refinement Restraint Deviation
r_lrange_it	13.976
r_lrange_other	12.21
r_dihedral_angle_1_deg	5.752
r_mcangle_other	5.291
r_mcangle_it	5.282
r_rigid_bond_restr	5.056
r_scangle_it	4.118
r_scangle_other	4.115
r_mcbond_it	3.48
r_mcbond_other	3.452
r_scbond_it	2.628
r_scbond_other	2.597
r_angle_refined_deg	1.472
r_angle_other_deg	0.859
r_symmetry_nbd_refined	0.508
r_nbd_other	0.298
r_symmetry_xyhbond_nbd_refined	0.287
r_xyhbond_nbd_refined	0.231
r_nbd_refined	0.201
r_symmetry_nbd_other	0.184
r_nbtor_refined	0.176
r_xyhbond_nbd_other	0.146
r_symmetry_nbtor_other	0.111
r_chiral_restr	0.109
r_symmetry_xyhbond_nbd_other	0.087
r_bond_refined_d	0.008
r_gen_planes_refined	0.008
r_bond_other_d	0.001
r_gen_planes_other

Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms	Number
Protein Atoms	1140
Nucleic Acid Atoms
Solvent Atoms	223
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.

9I99 | pdb_00009i99