8F0V

Lipocalin-like Milk protein-2 - E38A mutant

X-RAY DIFFRACTION

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Crystallization

Crystalization Experiments
ID	Method	pH	Temperature	Details
1	VAPOR DIFFUSION, HANGING DROP	7	293	0 (0.002 M Zinc sulfate heptahydrate; 0.08 M HEPES pH 7.0; 25 % v/v Jeffamine

Crystal Properties
Matthews coefficient	Solvent content
3.95	69

Crystal Data

Unit Cell
Length ( Å )	Angle ( ˚ )
a = 39.771	α = 90
b = 52.337	β = 90
c = 136.348	γ = 90

Symmetry
Space Group	P 2 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	CMOS	RDI CMOS_8M	double crystal	2022-05-07	M	SINGLE WAVELENGTH

Radiation Source
ID #	Source	Type	Wavelength List	Synchrotron Site	Beamline
1	SYNCHROTRON	ALS BEAMLINE 4.2.2	1.07	ALS	4.2.2

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	2.95	38.18	99.9	0.129	0.054	0.998	11.5	6.6		6461			76

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	2.95	3.13	100		2	0.83	0.58	1	6.9

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	THROUGHOUT	7BKX	2.951	38.18	6430	323	99.798	0.237	0.2345	0.2936	98.323

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]
6.649			0.7		-7.349

RMS Deviations
Key	Refinement Restraint Deviation
r_dihedral_angle_3_deg	17.414
r_lrange_other	17.345
r_lrange_it	17.344
r_dihedral_angle_2_deg	16.293
r_dihedral_angle_6_deg	13.73
r_mcangle_it	12.306
r_mcangle_other	12.298
r_scangle_it	11.967
r_scangle_other	11.962
r_mcbond_it	7.836
r_mcbond_other	7.835
r_scbond_it	7.747
r_scbond_other	7.742
r_dihedral_angle_1_deg	7.458
r_angle_refined_deg	1.361
r_angle_other_deg	0.432
r_nbd_refined	0.215
r_symmetry_nbd_other	0.207
r_nbtor_refined	0.19
r_xyhbond_nbd_refined	0.173
r_symmetry_nbd_refined	0.122
r_nbd_other	0.093
r_symmetry_nbtor_other	0.083
r_chiral_restr	0.054
r_symmetry_metal_ion_refined	0.033
r_bond_refined_d	0.01
r_gen_planes_refined	0.005
r_bond_other_d	0.004
r_gen_planes_other	0.001
r_symmetry_xyhbond_nbd_other	0.001

Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms	Number
Protein Atoms	1235
Nucleic Acid Atoms
Solvent Atoms	2
Heterogen Atoms	45

Software

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