6Z4O

A4V mutant of human SOD1 bound with benzyl benzoisoselenazolone derivative 1 in P21 space group

X-RAY DIFFRACTION

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Starting Model(s)

Initial Refinement Model(s)
Type	Source	Accession Code	Details
experimental model	PDB	1UXM

Crystallization

Crystalization Experiments
ID	Method	pH	Temperature	Details
1	VAPOR DIFFUSION, HANGING DROP	4.7	292	100mM NaOAc pH 4.7, 150mM NaCl, 2.7M ammonium sulphate

Crystal Properties
Matthews coefficient	Solvent content
2	38.4

Crystal Data

Unit Cell
Length ( Å )	Angle ( ˚ )
a = 38.339	α = 90
b = 67.949	β = 105.538
c = 50.456	γ = 90

Symmetry
Space Group	P 1 21 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 EIGER2 XE 16M		2020-02-14	M	SINGLE WAVELENGTH

Radiation Source
ID #	Source	Type	Wavelength List	Synchrotron Site	Beamline
1	SYNCHROTRON	DIAMOND BEAMLINE I04	0.9795	Diamond	I04

Data Collection

Overall
ID #	Resolution (High)	Resolution (Low)	Percent Possible (Observed)	R Merge I (Observed)	Rrim I (All)	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	1.35	48.611	99.8	0.048	0.065	0.045	0.997	9.7	3.2		54620			12.764

Highest Resolution Shell
ID #	Resolution (High)	Resolution (Low)	Percent Possible (All)	Percent Possible (Observed)	R Merge I (Observed)	Rrim I (All)	Rpim I (All)	CC (Half)	Mean I Over Sigma (Observed)	Redundancy	Number Unique Reflections (All)
1	1.35	1.37	99.4		0.401	0.548	0.372	0.795	1.8	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	Mean Isotropic B
X-RAY DIFFRACTION	MOLECULAR REPLACEMENT	FREE R-VALUE	1UXM	1.4	48.611	48969	2397	99.782	0.209	0.2079	0.2321	17.836

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]
0.575		-0.14	-0.817		0.277

RMS Deviations
Key	Refinement Restraint Deviation
r_dihedral_angle_other_3_deg	49.375
r_dihedral_angle_2_deg	36.572
r_dihedral_angle_4_deg	23.772
r_dihedral_angle_3_deg	14.641
r_dihedral_angle_1_deg	7.603
r_lrange_it	5.349
r_lrange_other	5.289
r_scangle_it	4.256
r_scangle_other	4.227
r_scbond_it	2.846
r_scbond_other	2.802
r_mcangle_it	2.624
r_mcangle_other	2.623
r_angle_refined_deg	1.874
r_mcbond_it	1.819
r_mcbond_other	1.819
r_angle_other_deg	1.605
r_symmetry_nbd_refined	0.318
r_metal_ion_refined	0.298
r_nbd_other	0.281
r_nbd_refined	0.258
r_symmetry_nbd_other	0.204
r_nbtor_refined	0.165
r_xyhbond_nbd_refined	0.126
r_ncsr_local_group_1	0.099
r_chiral_restr	0.096
r_symmetry_xyhbond_nbd_refined	0.092
r_symmetry_nbtor_other	0.09
r_bond_refined_d	0.015
r_gen_planes_refined	0.01
r_gen_planes_other	0.004
r_bond_other_d	0.002

Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms	Number
Protein Atoms	2201
Nucleic Acid Atoms
Solvent Atoms	228
Heterogen Atoms	53

Software

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