9I4K | pdb_00009i4k

X-RAY DIFFRACTION

Initial Refinement Model(s)
Type	Source	Accession Code	Details
experimental model	PDB	3T2T

Crystalization Experiments
ID	Method	pH	Temperature	Details
1	VAPOR DIFFUSION, SITTING DROP	7.4	291	0.1M Tris-Cl, pH8, 0.2M lithium sulfate, 30% PEG 3350

Crystal Properties
Matthews coefficient	Solvent content
2.45	49.83

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	100	PIXEL	DECTRIS PILATUS 6M		2021-10-08	M	SINGLE WAVELENGTH

Radiation Source
ID #	Source	Type	Wavelength List	Synchrotron Site	Beamline
1	SYNCHROTRON	BESSY BEAMLINE 14.1	0.9184	BESSY	14.1

Overall
ID #	Resolution (High)	Resolution (Low)	Percent Possible (Observed)	Rrim 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	1.631	35.017	95.3	0.118	0.998	10.62	9.2		35961			31.86

Highest Resolution Shell
ID #	Resolution (High)	Resolution (Low)	Percent Possible (All)	Percent Possible (Observed)	Rrim I (All)	CC (Half)	Mean I Over Sigma (Observed)	Redundancy	Number Unique Reflections (All)
1	1.631	1.73	85.6		1.637	0.575	0.96	7.7

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	1.631	35.017	35957	1817	95.384	0.22	0.2181	0.2257	0.264	0.2714	31.414

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]
3.824			-2.975		-0.849

RMS Deviations
Key	Refinement Restraint Deviation
r_dihedral_angle_6_deg	16.082
r_dihedral_angle_3_deg	12.778
r_lrange_it	8.09
r_lrange_other	8.089
r_dihedral_angle_1_deg	7.312
r_dihedral_angle_2_deg	6.41
r_scangle_it	6.279
r_scangle_other	6.277
r_mcangle_it	4.364
r_mcangle_other	4.364

RMS Deviations
Key	Refinement Restraint Deviation
r_dihedral_angle_6_deg	16.082
r_dihedral_angle_3_deg	12.778
r_lrange_it	8.09
r_lrange_other	8.089
r_dihedral_angle_1_deg	7.312
r_dihedral_angle_2_deg	6.41
r_scangle_it	6.279
r_scangle_other	6.277
r_mcangle_it	4.364
r_mcangle_other	4.364
r_scbond_other	4.169
r_scbond_it	4.168
r_mcbond_it	2.974
r_mcbond_other	2.971
r_angle_refined_deg	1.771
r_angle_other_deg	0.564
r_nbd_other	0.255
r_nbd_refined	0.211
r_symmetry_nbd_other	0.209
r_symmetry_xyhbond_nbd_refined	0.178
r_nbtor_refined	0.175
r_xyhbond_nbd_refined	0.17
r_symmetry_nbd_refined	0.136
r_symmetry_nbtor_other	0.085
r_chiral_restr	0.077
r_symmetry_xyhbond_nbd_other	0.062
r_bond_refined_d	0.009
r_gen_planes_refined	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	2056
Nucleic Acid Atoms
Solvent Atoms	207
Heterogen Atoms	54

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.