6YWJ

Arabidopsis aspartate transcarbamoylase mutant F161A complex with UMP

X-RAY DIFFRACTION

---

Crystallization

Crystalization Experiments
ID	Method	pH	Temperature	Details
1	VAPOR DIFFUSION		293	Protein at 5 mg/ml in buffer 20 mM Tris pH 7.0, 0.1 M NaCl, 2% glycerol, 0.2 mM tris(2-carboxyethyl) phosphine (TCEP) and with 5 mM UMP. Crystallization solution: 18-22 % PEG3350, 0.1 M Na2SO4 and 0.1 M bis-tris pH 6.5 Crystals were cryo-protected by soaking in a solution containing the mother liquor supplemented with 20% glycerol and the 5 mM UMP.

Crystal Properties
Matthews coefficient	Solvent content
2.71	54.56

Crystal Data

Unit Cell
Length ( Å )	Angle ( ˚ )
a = 104.343	α = 90
b = 104.343	β = 90
c = 127.845	γ = 120

Symmetry
Space Group	P 63

Diffraction

Diffraction Experiment
ID #	Crystal ID	Scattering Type	Data Collection Temperature	Detector	Detector Type	Details	Collection Date	Monochromator	Protocol
1	1	x-ray	100	PIXEL	DECTRIS PILATUS 6M		2019-01-31	M	SINGLE WAVELENGTH

Radiation Source
ID #	Source	Type	Wavelength List	Synchrotron Site	Beamline
1	SYNCHROTRON	ALBA BEAMLINE XALOC	0.97926	ALBA	XALOC

Data Collection

Overall
ID #	Resolution (High)	Resolution (Low)	Percent Possible (Observed)	R Merge I (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	2.4	48.304	100	0.194	0.992	8.5	10		30917

Highest Resolution Shell
ID #	Resolution (High)	Resolution (Low)	Percent Possible (All)	Percent Possible (Observed)	R Merge I (Observed)	CC (Half)	Mean I Over Sigma (Observed)	Redundancy	Number Unique Reflections (All)
1	2.4	2.49			1.255	0.629	2

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	6YPO	2.4	48.304	30890	1539	99.977	0.141	0.1383	0.1903	42.89

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]
11.617			11.617		-23.234

RMS Deviations
Key	Refinement Restraint Deviation
r_dihedral_angle_2_deg	33.096
r_dihedral_angle_4_deg	19.435
r_dihedral_angle_3_deg	17.261
r_lrange_it	8.344
r_lrange_other	8.343
r_dihedral_angle_1_deg	7.95
r_scangle_it	6.847
r_scangle_other	6.846
r_mcangle_it	5.774
r_mcangle_other	5.774
r_scbond_it	4.822
r_scbond_other	4.822
r_mcbond_it	4.353
r_mcbond_other	4.351
r_angle_refined_deg	1.784
r_angle_other_deg	1.297
r_symmetry_nbd_refined	0.247
r_symmetry_nbd_other	0.205
r_nbd_refined	0.203
r_nbd_other	0.203
r_xyhbond_nbd_refined	0.19
r_nbtor_refined	0.167
r_symmetry_xyhbond_nbd_refined	0.157
r_symmetry_xyhbond_nbd_other	0.148
r_symmetry_nbtor_other	0.091
r_chiral_restr	0.072
r_bond_refined_d	0.011
r_gen_planes_refined	0.008
r_bond_other_d	0.001
r_gen_planes_other	0.001

Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms	Number
Protein Atoms	4884
Nucleic Acid Atoms
Solvent Atoms	8
Heterogen Atoms	54

Software

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