8D7J

Crystal structure of hen egg white lysozyme at 250 Kelvin

X-RAY DIFFRACTION

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Crystallization

Crystalization Experiments
ID	Method	pH	Temperature	Details
1	VAPOR DIFFUSION, SITTING DROP	4.6	295	1.2 M NaCl and 100 mM AcONa pH 4.6

Crystal Properties
Matthews coefficient	Solvent content
2.07	40.63

Crystal Data

Unit Cell
Length ( Å )	Angle ( ˚ )
a = 79.318	α = 90
b = 79.318	β = 90
c = 37.756	γ = 90

Symmetry
Space Group	P 43 21 2

Diffraction

Diffraction Experiment
ID #	Crystal ID	Scattering Type	Data Collection Temperature	Detector	Detector Type	Details	Collection Date	Monochromator	Protocol
1	1	x-ray	250	CMOS	BRUKER PHOTON 100		2020-11-04	L	LAUE

Radiation Source
ID #	Source	Type	Wavelength List	Synchrotron Site	Beamline
1	ROTATING ANODE	BRUKER TURBO X-RAY SOURCE	1.54184

Data Collection

Overall
ID #	Resolution (High)	Resolution (Low)	Percent Possible (Observed)	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	1.5	25.1	99.66	0.758	8.34	1.9		19866

Highest Resolution Shell
ID #	Resolution (High)	Resolution (Low)	Percent Possible (All)	Percent Possible (Observed)	CC (Half)	Mean I Over Sigma (Observed)	Redundancy	Number Unique Reflections (All)
1	1.5	25.1			0.758

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	3A8Z	1.5	25.095	19866	1014	99.664	0.166	0.1644	0.1909	15.127

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]
-0.001			-0.001		0.002

RMS Deviations
Key	Refinement Restraint Deviation
r_dihedral_angle_2_deg	32.185
r_dihedral_angle_3_deg	13.543
r_dihedral_angle_4_deg	12.994
r_dihedral_angle_1_deg	6.667
r_lrange_it	5.845
r_lrange_other	5.834
r_scangle_it	4.466
r_scangle_other	4.463
r_scbond_it	2.882
r_scbond_other	2.88
r_mcangle_other	2.068
r_mcangle_it	2.064
r_angle_refined_deg	1.82
r_angle_other_deg	1.624
r_mcbond_it	1.355
r_mcbond_other	1.333
r_nbd_refined	0.234
r_symmetry_nbd_other	0.197
r_nbtor_refined	0.177
r_xyhbond_nbd_refined	0.138
r_nbd_other	0.12
r_chiral_restr	0.099
r_symmetry_nbd_refined	0.098
r_symmetry_nbtor_other	0.085
r_metal_ion_refined	0.074
r_symmetry_xyhbond_nbd_refined	0.057
r_bond_refined_d	0.013
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	1001
Nucleic Acid Atoms
Solvent Atoms	67
Heterogen Atoms	20

Software

Software
Software Name	Purpose
REFMAC	refinement
SAINT	data reduction