7ZP2

Crystal Structure of truncated aspartate transcarbamoylase from Plasmodium falciparum in complex with BDA-04

X-RAY DIFFRACTION

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Crystallization

Crystalization Experiments
ID	Method	pH	Temperature	Details
1	VAPOR DIFFUSION, SITTING DROP	7.5	293	200mM NaCl, 15%(w/v)PEG3350, 100mM bis-tris propane, 2%(v/v)DMSO

Crystal Properties
Matthews coefficient	Solvent content
2.18	43.74

Crystal Data

Unit Cell
Length ( Å )	Angle ( ˚ )
a = 87.065	α = 89.981
b = 87.36	β = 90.036
c = 104.636	γ = 117.724

Symmetry
Space Group	P 1

Diffraction

Diffraction Experiment
ID #	Crystal ID	Scattering Type	Data Collection Temperature	Detector	Detector Type	Details	Collection Date	Monochromator	Protocol
1	1	x-ray	291	PIXEL	DECTRIS PILATUS 6M		2019-07-13	M	SINGLE WAVELENGTH

Radiation Source
ID #	Source	Type	Wavelength List	Synchrotron Site	Beamline
1	SYNCHROTRON	PETRA III, DESY BEAMLINE P11	1.033200	PETRA III, DESY	P11

Data Collection

Overall
ID #	Resolution (High)	Resolution (Low)	Percent Possible (Observed)	R Merge I (Observed)	Rrim I (All)	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	2.292	62.192	97.1	0.056	0.079	0.056	0.992	9.4	1.7		117783

Highest Resolution Shell
ID #	Resolution (High)	Resolution (Low)	Percent Possible (All)	Percent Possible (Observed)	R Merge I (Observed)	Rrim I (All)	Rpim I (All)	CC (Half)	Mean I Over Sigma (Observed)	Redundancy	Number Unique Reflections (All)
1	2.3	2.34			0.303	0.429	0.303	0.931		1.8

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	5ILQ	2.292	62.192	117672	6216	95.99	0.165	0.1636	0.1914	54.772

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]
3.212	-1.142	-3.002	-3.233	2.366	0.021

RMS Deviations
Key	Refinement Restraint Deviation
r_dihedral_angle_2_deg	36.162
r_dihedral_angle_4_deg	24.94
r_dihedral_angle_3_deg	18.767
r_dihedral_angle_1_deg	8.087
r_lrange_it	7.021
r_lrange_other	7.017
r_mcangle_it	5.232
r_mcangle_other	5.232
r_scangle_it	5.04
r_scangle_other	5.007
r_mcbond_it	3.825
r_mcbond_other	3.825
r_scbond_it	3.713
r_scbond_other	3.659
r_angle_refined_deg	2.037
r_angle_other_deg	1.392
r_symmetry_xyhbond_nbd_refined	0.334
r_xyhbond_nbd_refined	0.256
r_nbd_other	0.239
r_nbd_refined	0.228
r_symmetry_nbd_other	0.205
r_nbtor_refined	0.176
r_symmetry_nbd_refined	0.172
r_symmetry_xyhbond_nbd_other	0.141
r_ncsr_local_group_7	0.104
r_ncsr_local_group_6	0.103
r_ncsr_local_group_9	0.103
r_ncsr_local_group_11	0.103
r_ncsr_local_group_10	0.1
r_ncsr_local_group_1	0.099
r_ncsr_local_group_5	0.099
r_ncsr_local_group_3	0.098
r_ncsr_local_group_4	0.098
r_ncsr_local_group_13	0.098
r_chiral_restr	0.097
r_ncsr_local_group_15	0.097
r_ncsr_local_group_2	0.096
r_ncsr_local_group_14	0.095
r_ncsr_local_group_8	0.093
r_symmetry_nbtor_other	0.087
r_ncsr_local_group_12	0.086
r_metal_ion_refined	0.026
r_bond_refined_d	0.014
r_gen_planes_refined	0.011
r_bond_other_d	0.003
r_gen_planes_other	0.002

Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms	Number
Protein Atoms	16344
Nucleic Acid Atoms
Solvent Atoms	195
Heterogen Atoms	52

Software

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