8F00 | pdb_00008f00

Lysozyme Anomalous Dataset at 293 K and 12 keV

X-RAY DIFFRACTION

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Crystallization

Crystalization Experiments
ID	Method	pH	Temperature	Details
1	VAPOR DIFFUSION, HANGING DROP	4.5	298	5 uL of 0.6 M Sodium Chloride in 100 mM Sodium Acetate buffer pH 4.5 and 25% ethylene glycol were mixed with 5 uL 100 mg/mL lysozyme in 100 mM Sodium Acetate

Crystal Properties
Matthews coefficient	Solvent content
1.96	37.24

Crystal Data

Unit Cell
Length ( Å )	Angle ( ˚ )
a = 77.794	α = 90
b = 77.794	β = 90
c = 37.127	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	293	PIXEL	DECTRIS EIGER X 16M		2020-01-19	M	SINGLE WAVELENGTH

Radiation Source
ID #	Source	Type	Wavelength List	Synchrotron Site	Beamline
1	SYNCHROTRON	SSRL BEAMLINE BL14-1	1.0332	SSRL	BL14-1

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	1.2	35.06	95	0.092	0.013	1	27.9	53.9		34193			22.153

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	1.2	1.22	90.1		5.75	0.79	0.622	1.6	52.8

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 (Depositor)	R-Work (DCC)	R-Free (Depositor)	R-Free (DCC)	Mean Isotropic B
X-RAY DIFFRACTION	SAD	FREE R-VALUE	1.2	33.529	34193	1686	94.5	0.122	0.1209	0.12	0.1462	0.15	23.629

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]
0.299			0.299		-0.599

RMS Deviations
Key	Refinement Restraint Deviation
r_rigid_bond_restr	26.56
r_scbond_it	18.367
r_scbond_other	18.352
r_dihedral_angle_6_deg	16.754
r_scangle_other	14.388
r_dihedral_angle_3_deg	14.358
r_scangle_it	14.324
r_lrange_other	10.3
r_lrange_it	10.285
r_dihedral_angle_2_deg	9.644
r_dihedral_angle_1_deg	6.103
r_mcangle_it	4.958
r_mcangle_other	4.954
r_mcbond_it	4.731
r_mcbond_other	4.714
r_angle_refined_deg	1.801
r_angle_other_deg	0.661
r_xyhbond_nbd_refined	0.452
r_symmetry_xyhbond_nbd_refined	0.31
r_symmetry_nbd_refined	0.272
r_nbd_refined	0.263
r_nbd_other	0.262
r_symmetry_nbd_other	0.212
r_nbtor_refined	0.182
r_symmetry_xyhbond_nbd_other	0.157
r_chiral_restr	0.098
r_metal_ion_refined	0.096
r_symmetry_nbtor_other	0.083
r_bond_refined_d	0.01
r_gen_planes_refined	0.009
r_bond_other_d	0.003
r_gen_planes_other	0.002

Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms	Number
Protein Atoms	1001
Nucleic Acid Atoms
Solvent Atoms	89
Heterogen Atoms	15

Software

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