9R2C | pdb_00009r2c

X-RAY DIFFRACTION

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

Crystalization Experiments
ID	Method	pH	Temperature	Details
1	VAPOR DIFFUSION, HANGING DROP	7.8	293	protein: 30 mg/ml in 25 mM HEPES, 0.5 M NaCl, 5% glycerol, 2 mM TCEP reservoir: 25 % PEG3350, 0.2 M Lithium sulfate, 0.1 M tris pH 7.8

Crystal Properties
Matthews coefficient	Solvent content
2.44	49.49

Symmetry
Space Group	P 2 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		2016-05-13	M	SINGLE WAVELENGTH

Radiation Source
ID #	Source	Type	Wavelength List	Synchrotron Site	Beamline
1	SYNCHROTRON	DIAMOND BEAMLINE I03	0.97623	Diamond	I03

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	1.84	116.16	100	0.088	0.053	0.999	14.4	6.3		104930

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	1.84	1.85	97		0.807	0.58	0.653	2	4.4

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	1.84	89.904	104856	5187	99.907	0.164	0.1622	0.1716	0.1933	0.1993	28.786

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]
0.001			-0.003		0.002

RMS Deviations
Key	Refinement Restraint Deviation
r_dihedral_angle_6_deg	15.018
r_dihedral_angle_3_deg	12.814
r_dihedral_angle_2_deg	11.532
r_lrange_it	8.245
r_lrange_other	8.245
r_scangle_it	6.579
r_scangle_other	6.578
r_dihedral_angle_1_deg	6.566
r_scbond_it	4.27
r_scbond_other	4.268

RMS Deviations
Key	Refinement Restraint Deviation
r_dihedral_angle_6_deg	15.018
r_dihedral_angle_3_deg	12.814
r_dihedral_angle_2_deg	11.532
r_lrange_it	8.245
r_lrange_other	8.245
r_scangle_it	6.579
r_scangle_other	6.578
r_dihedral_angle_1_deg	6.566
r_scbond_it	4.27
r_scbond_other	4.268
r_mcangle_it	3.495
r_mcangle_other	3.495
r_dihedral_angle_other_2_deg	2.836
r_mcbond_it	2.595
r_mcbond_other	2.595
r_angle_refined_deg	1.688
r_angle_other_deg	0.576
r_nbd_refined	0.21
r_nbd_other	0.205
r_symmetry_nbd_other	0.186
r_nbtor_refined	0.181
r_symmetry_nbd_refined	0.165
r_xyhbond_nbd_refined	0.158
r_symmetry_xyhbond_nbd_refined	0.154
r_chiral_restr	0.084
r_symmetry_nbtor_other	0.081
r_ncsr_local_group_1	0.059
r_bond_refined_d	0.009
r_gen_planes_refined	0.008
r_symmetry_xyhbond_nbd_other	0.005
r_bond_other_d	0.001
r_gen_planes_other	0.001

Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms	Number
Protein Atoms	8074
Nucleic Acid Atoms
Solvent Atoms	739
Heterogen Atoms	65

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.