6Y0K

Sulfite oxidase from Thermus thermophilus with coordinated phosphate

X-RAY DIFFRACTION

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Crystallization

Crystalization Experiments
ID	Method	pH	Temperature	Details
1	VAPOR DIFFUSION, SITTING DROP	5	293	1.8 Na/K phosphate

Crystal Properties
Matthews coefficient	Solvent content
3.27	62.37

Crystal Data

Unit Cell
Length ( Å )	Angle ( ˚ )
a = 130.6	α = 90
b = 130.6	β = 90
c = 114.59	γ = 120

Symmetry
Space Group	P 61 2 2

Diffraction

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		2018-10-21	M	SINGLE WAVELENGTH

Radiation Source
ID #	Source	Type	Wavelength List	Synchrotron Site	Beamline
1	SYNCHROTRON	DIAMOND BEAMLINE I24	0.96851	Diamond	I24

Data Collection

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	1.7	42.75	99.94	0.08164	0.02249	0.999	18.68	13.6		63544			25.29

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	1.7	1.76	100		1.063	0.2857	0.826	2.67	14

Refinement

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	R-Free	Mean Isotropic B
X-RAY DIFFRACTION	MOLECULAR REPLACEMENT	FREE R-VALUE	2BLF	1.7	42.749	63543	2000	99.967	0.167	0.1658	0.1909	26.697

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]
0.345	0.172		0.345		-1.119

RMS Deviations
Key	Refinement Restraint Deviation
r_dihedral_angle_2_deg	29.484
r_dihedral_angle_4_deg	16.353
r_dihedral_angle_3_deg	12.414
r_dihedral_angle_1_deg	6.655
r_lrange_it	6.216
r_lrange_other	6.216
r_scangle_it	4.145
r_scangle_other	4.144
r_scbond_it	2.742
r_scbond_other	2.741
r_mcangle_other	2.205
r_mcangle_it	2.204
r_mcbond_it	1.571
r_mcbond_other	1.568
r_angle_refined_deg	1.498
r_angle_other_deg	1.333
r_nbd_other	0.31
r_symmetry_nbd_refined	0.291
r_nbd_refined	0.271
r_symmetry_nbd_other	0.185
r_symmetry_xyhbond_nbd_refined	0.183
r_nbtor_refined	0.164
r_xyhbond_nbd_refined	0.122
r_symmetry_nbtor_other	0.08
r_chiral_restr	0.073
r_bond_refined_d	0.008
r_gen_planes_refined	0.007
r_bond_other_d	0.002
r_gen_planes_other	0.002

Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms	Number
Protein Atoms	2964
Nucleic Acid Atoms
Solvent Atoms	418
Heterogen Atoms	70

Software

Software
Software Name	Purpose
REFMAC	refinement
XDS	data reduction
XSCALE	data scaling
MOLREP	phasing