9FE0

Crystal Structure of reduced NuoEF variant R66G(NuoF) from Aquifex aeolicus bound to NAD+

X-RAY DIFFRACTION

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Starting Model(s)

Initial Refinement Model(s)
Type	Source	Accession Code	Details
experimental model	PDB	9FDJ	Rfraa flags were transferred from the scaled data of the isomorphous structure 9FDJ

Crystallization

Crystalization Experiments
ID	Method	pH	Temperature	Details
1	VAPOR DIFFUSION, SITTING DROP	6.3	281	100 mM BisTris pH 6.3, 1.4 M ammonium sulfate, 100 mM NaCl

Crystal Properties
Matthews coefficient	Solvent content
2.63	53.25

Crystal Data

Unit Cell
Length ( Å )	Angle ( ˚ )
a = 63.527	α = 90
b = 116.5	β = 90
c = 190.823	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 PILATUS3 6M		2021-04-14	M	SINGLE WAVELENGTH

Radiation Source
ID #	Source	Type	Wavelength List	Synchrotron Site	Beamline
1	SYNCHROTRON	ESRF BEAMLINE ID23-2	0.8731	ESRF	ID23-2

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	2.2	48.2	99.9	0.07	0.996	7.9	9.7		72750

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	2.2	2.25			0.42	0.806

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	FOURIER SYNTHESIS	FREE R-VALUE	2.2	48.197	72673	3621	99.816	0.188	0.1859	0.2286	Rfree flags were transferred from scaled data of isomorphous structure 9FDJ	29.152

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]
-1.408			2.553		-1.145

RMS Deviations
Key	Refinement Restraint Deviation
r_dihedral_angle_6_deg	13.69
r_dihedral_angle_other_3_deg	12.306
r_dihedral_angle_3_deg	12.28
r_dihedral_angle_2_deg	6.382
r_dihedral_angle_1_deg	6.304
r_lrange_it	4.442
r_lrange_other	4.353
r_scangle_it	1.421
r_scangle_other	1.304
r_angle_refined_deg	1.284
r_mcangle_it	0.896
r_mcangle_other	0.896
r_scbond_it	0.866
r_scbond_other	0.762
r_mcbond_it	0.533
r_mcbond_other	0.533
r_angle_other_deg	0.442
r_symmetry_nbd_refined	0.25
r_nbd_refined	0.205
r_symmetry_xyhbond_nbd_refined	0.196
r_symmetry_nbd_other	0.186
r_nbtor_refined	0.182
r_nbd_other	0.175
r_xyhbond_nbd_refined	0.137
r_metal_ion_refined	0.12
r_symmetry_nbtor_other	0.073
r_chiral_restr	0.064
r_symmetry_xyhbond_nbd_other	0.008
r_bond_refined_d	0.004
r_dihedral_angle_other_2_deg	0.004
r_gen_planes_refined	0.004
r_bond_other_d	0.001
r_gen_planes_other	0.001

Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms	Number
Protein Atoms	9068
Nucleic Acid Atoms
Solvent Atoms	673
Heterogen Atoms	252

Software

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