6KRK

Peroxiredoxin from Aeropyrum pernix K1 (ApPrx) 0Cys mutant

X-RAY DIFFRACTION

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Crystallization

Crystalization Experiments
ID	Method	pH	Temperature	Details
1	VAPOR DIFFUSION, HANGING DROP		293	0.1 M Sodium citrate tribasic dihydrate pH 5.6, 1.0 M Ammonium phosphate monobasic

Crystal Properties
Matthews coefficient	Solvent content
2.61	52.93

Crystal Data

Unit Cell
Length ( Å )	Angle ( ˚ )
a = 75.825	α = 105.878
b = 102.79	β = 105.135
c = 104.435	γ = 92.463

Symmetry
Space Group	P 1

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 EIGER X 16M		2019-05-16	M	SINGLE WAVELENGTH

Radiation Source
ID #	Source	Type	Wavelength List	Synchrotron Site	Beamline
1	SYNCHROTRON	SPRING-8 BEAMLINE BL44XU	0.9	SPring-8	BL44XU

Data Collection

Overall
ID #	Resolution (High)	Resolution (Low)	Percent Possible (Observed)	R Merge I (Observed)	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	1.8	50	97.5	0.06	9.2	3.1		262648

Highest Resolution Shell
ID #	Resolution (High)	Resolution (Low)	Percent Possible (All)	Percent Possible (Observed)	R Merge I (Observed)	Mean I Over Sigma (Observed)	Redundancy	Number Unique Reflections (All)
1	1.8	1.83			0.395	2.6

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	R-Free Selection Details	Mean Isotropic B
X-RAY DIFFRACTION	MOLECULAR REPLACEMENT	THROUGHOUT	2E2G	1.8	49.432	262196	13261	97.357	0.161	0.1588	0.1937	RANDOM	25.348

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]
0.435	-0.706	1.284	-1.488	-1.603	1.024

RMS Deviations
Key	Refinement Restraint Deviation
r_dihedral_angle_2_deg	27.958
r_dihedral_angle_4_deg	19.91
r_dihedral_angle_3_deg	16.693
r_lrange_it	7.518
r_lrange_other	7.46
r_dihedral_angle_1_deg	6.567
r_scangle_it	5.838
r_scangle_other	5.838
r_scbond_it	3.932
r_scbond_other	3.931
r_mcangle_it	2.915
r_mcangle_other	2.915
r_mcbond_it	2.121
r_mcbond_other	2.121
r_angle_refined_deg	1.821
r_angle_other_deg	1.479
r_symmetry_xyhbond_nbd_refined	0.294
r_nbd_other	0.289
r_symmetry_nbd_refined	0.233
r_xyhbond_nbd_refined	0.223
r_nbd_refined	0.211
r_symmetry_nbd_other	0.193
r_symmetry_xyhbond_nbd_other	0.18
r_nbtor_refined	0.174
r_symmetry_nbtor_other	0.099
r_chiral_restr	0.098
r_bond_refined_d	0.012
r_gen_planes_refined	0.011
r_gen_planes_other	0.002
r_bond_other_d	0.001

Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms	Number
Protein Atoms	19730
Nucleic Acid Atoms
Solvent Atoms	1225
Heterogen Atoms	130

Software

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