8BQO

Structure of E.coli Class 2 L-asparaginase EcAIII, mutant M200I

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 100mM Tris-HCl pH 8.5

Crystal Properties
Matthews coefficient	Solvent content
2.41	48.88

Crystal Data

Unit Cell
Length ( Å )	Angle ( ˚ )
a = 52.923	α = 90
b = 77.671	β = 90
c = 148.28	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		2021-07-05	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	2.1	17.21	97.9	0.142	0.169	0.983	5.2	2.9		35616

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	2.1	2.16	99		0.663	0.838	0.514	2.7	2.3

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	2.1	17.209	35579	1064	97.453	0.184	0.1823	0.2315	18.42

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]
1.123			-0.273		-0.85

RMS Deviations
Key	Refinement Restraint Deviation
r_dihedral_angle_2_deg	29.494
r_dihedral_angle_4_deg	18.831
r_dihedral_angle_3_deg	13.569
r_dihedral_angle_1_deg	6.896
r_lrange_it	4.172
r_lrange_other	4.144
r_scangle_it	2.896
r_scangle_other	2.895
r_mcangle_it	1.984
r_mcangle_other	1.984
r_scbond_it	1.811
r_scbond_other	1.81
r_angle_refined_deg	1.523
r_angle_other_deg	1.354
r_mcbond_it	1.254
r_mcbond_other	1.253
r_nbd_other	0.225
r_nbd_refined	0.209
r_symmetry_nbd_other	0.177
r_xyhbond_nbd_refined	0.157
r_nbtor_refined	0.156
r_symmetry_nbd_refined	0.139
r_symmetry_xyhbond_nbd_refined	0.126
r_symmetry_nbtor_other	0.082
r_metal_ion_refined	0.071
r_chiral_restr	0.068
r_symmetry_xyhbond_nbd_other	0.058
r_bond_refined_d	0.009
r_gen_planes_refined	0.006
r_bond_other_d	0.001
r_gen_planes_other	0.001

Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms	Number
Protein Atoms	4244
Nucleic Acid Atoms
Solvent Atoms	234
Heterogen Atoms	15

Software

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