9FE8

Crystal Structure of reduced NuoEF variant P228R(NuoF) from Aquifex aeolicus

X-RAY DIFFRACTION

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Starting Model(s)

Initial Refinement Model(s)
Type	Source	Accession Code	Details
experimental model	PDB	6HL2	Chains A and B were used as ensemble, which was placed two times independently in the asymmetric unit

Crystallization

Crystalization Experiments
ID	Method	pH	Temperature	Details
1	VAPOR DIFFUSION, SITTING DROP	6.3	281	100 mM BisTris pH 6.3, 1.65 M ammonium sulfate, 150 mM NaCl

Crystal Properties
Matthews coefficient	Solvent content
2.6	52.62

Crystal Data

Unit Cell
Length ( Å )	Angle ( ˚ )
a = 63.084	α = 90
b = 116.217	β = 90
c = 190.26	γ = 90

Symmetry
Space Group	P 21 21 21

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 PILATUS 6M		2020-09-12	M	SINGLE WAVELENGTH

Radiation Source
ID #	Source	Type	Wavelength List	Synchrotron Site	Beamline
1	SYNCHROTRON	ESRF BEAMLINE ID23-1	0.9724	ESRF	ID23-1

Data Collection

Overall
ID #	Resolution (High)	Resolution (Low)	Percent Possible (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	2.34	49.638	100	0.068	0.996	8.2	11.2		59973

Highest Resolution Shell
ID #	Resolution (High)	Resolution (Low)	Percent Possible (All)	Percent Possible (Observed)	Rpim I (All)	CC (Half)	Mean I Over Sigma (Observed)	Redundancy	Number Unique Reflections (All)
1	2.34	2.4			0.508	0.761

Refinement

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	R-Free	R-Free Selection Details	Mean Isotropic B
X-RAY DIFFRACTION	MOLECULAR REPLACEMENT	FREE R-VALUE	2.34	49.638	59552	2968	99.391	0.185	0.1838	0.2063	Random selection	43.243

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]
1.751			-0.093		-1.659

RMS Deviations
Key	Refinement Restraint Deviation
r_dihedral_angle_other_3_deg	18.948
r_dihedral_angle_3_deg	12.987
r_dihedral_angle_6_deg	12.532
r_dihedral_angle_2_deg	6.359
r_dihedral_angle_1_deg	6.098
r_lrange_it	5.334
r_lrange_other	5.291
r_scangle_it	3.253
r_scangle_other	3.183
r_mcangle_it	2.25
r_mcangle_other	2.25
r_scbond_it	2.032
r_scbond_other	1.948
r_mcbond_it	1.449
r_mcbond_other	1.448
r_angle_refined_deg	1.414
r_angle_other_deg	0.496
r_nbd_refined	0.213
r_symmetry_nbd_other	0.192
r_nbtor_refined	0.182
r_nbd_other	0.18
r_symmetry_nbd_refined	0.159
r_xyhbond_nbd_refined	0.145
r_metal_ion_refined	0.136
r_symmetry_xyhbond_nbd_refined	0.122
r_symmetry_nbtor_other	0.074
r_chiral_restr	0.072
r_bond_refined_d	0.006
r_gen_planes_refined	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	9133
Nucleic Acid Atoms
Solvent Atoms	476
Heterogen Atoms	167

Software

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