8BP9

Structure of E. coli Class 2 L-asparaginase EcAIII, mutant M200W (crystal M200W#2)

X-RAY DIFFRACTION

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Crystallization

Crystalization Experiments
ID	Method	pH	Temperature	Details
1	VAPOR DIFFUSION, HANGING DROP	8.5	293	20-30% PEG4000, 10-15%PEG400,0.2M MgCl2 in 100 mM Tris-HCl pH 8.5

Crystal Properties
Matthews coefficient	Solvent content
2.08	40.85

Crystal Data

Unit Cell
Length ( Å )	Angle ( ˚ )
a = 50.974	α = 90
b = 74.475	β = 90
c = 146.787	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	CCD	AGILENT ATLAS CCD		2022-10-25	M	SINGLE WAVELENGTH

Radiation Source
ID #	Source	Type	Wavelength List	Synchrotron Site	Beamline
1	SEALED TUBE	Agilent SuperNova	1.5418

Data Collection

Overall
ID #	Resolution (High)	Resolution (Low)	Percent Possible (Observed)	R Merge I (Observed)	Rrim 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	1.7	73.4	99.1	0.082	0.094	0.995	9.9	4		61686

Highest Resolution Shell
ID #	Resolution (High)	Resolution (Low)	Percent Possible (All)	Percent Possible (Observed)	R Merge I (Observed)	Rrim I (All)	CC (Half)	Mean I Over Sigma (Observed)	Redundancy	Number Unique Reflections (All)
1	1.7	1.73	97.8		0.378	0.455	0.749	2.5	3.1

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	2ZAL	1.7	73.4	61581	1056	98.781	0.194	0.1933	0.2284	11.731

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]
-0.327			0.46		-0.133

RMS Deviations
Key	Refinement Restraint Deviation
r_dihedral_angle_2_deg	28.424
r_dihedral_angle_4_deg	16.481
r_dihedral_angle_3_deg	13.783
r_dihedral_angle_1_deg	6.953
r_lrange_it	3.083
r_lrange_other	2.954
r_angle_refined_deg	1.598
r_scangle_it	1.561
r_scangle_other	1.561
r_angle_other_deg	1.531
r_mcangle_it	1.303
r_mcangle_other	1.303
r_scbond_it	0.946
r_scbond_other	0.946
r_mcbond_it	0.737
r_mcbond_other	0.737
r_nbd_other	0.277
r_metal_ion_refined	0.258
r_nbd_refined	0.215
r_symmetry_xyhbond_nbd_refined	0.214
r_symmetry_nbd_refined	0.198
r_symmetry_nbd_other	0.188
r_nbtor_refined	0.164
r_xyhbond_nbd_refined	0.157
r_symmetry_nbtor_other	0.083
r_chiral_restr	0.074
r_bond_refined_d	0.011
r_gen_planes_refined	0.008
r_bond_other_d	0.003
r_gen_planes_other	0.002

Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms	Number
Protein Atoms	4253
Nucleic Acid Atoms
Solvent Atoms	266
Heterogen Atoms	6

Software

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