8B9Y

Cysteine Synthase from Trypanosoma cruzi with PLP and OAS

X-RAY DIFFRACTION

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Starting Model(s)

Initial Refinement Model(s)
Type	Source	Accession Code	Details
experimental model	PDB	4AIR

Crystallization

Crystalization Experiments
ID	Method	pH	Temperature	Details
1	VAPOR DIFFUSION, HANGING DROP		293	Ammonium Sulfate, Bis-Tis

Crystal Properties
Matthews coefficient	Solvent content
2.26	45.61

Crystal Data

Unit Cell
Length ( Å )	Angle ( ˚ )
a = 55.006	α = 90
b = 66.667	β = 90.468
c = 167.518	γ = 90

Symmetry
Space Group	P 1 21 1

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 EIGER2 XE 16M		2020-08-11	M	SINGLE WAVELENGTH

Radiation Source
ID #	Source	Type	Wavelength List	Synchrotron Site	Beamline
1	SYNCHROTRON	DIAMOND BEAMLINE I03	0.9762	Diamond	I03

Data Collection

Overall
ID #	Resolution (High)	Resolution (Low)	Percent Possible (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	1.8	54.94	98.27	0.9961	12.93	3.37		110107

Highest Resolution Shell
ID #	Resolution (High)	Resolution (Low)	Percent Possible (All)	Percent Possible (Observed)	CC (Half)	Mean I Over Sigma (Observed)	Redundancy	Number Unique Reflections (All)
1	1.8	1.83			0.9059

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	4AIR	1.8	54.94	110107	5483	97.867	0.193	0.1913	0.2173	24.233

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]
-0.554		-0.123	0.046		0.51

RMS Deviations
Key	Refinement Restraint Deviation
r_dihedral_angle_6_deg	16.063
r_dihedral_angle_3_deg	13.507
r_dihedral_angle_2_deg	11.185
r_lrange_it	6.025
r_lrange_other	6.025
r_dihedral_angle_1_deg	5.782
r_scangle_it	4.293
r_scangle_other	4.293
r_mcangle_it	3.141
r_mcangle_other	3.141
r_scbond_it	2.942
r_scbond_other	2.942
r_mcbond_it	2.273
r_mcbond_other	2.271
r_angle_refined_deg	1.362
r_angle_other_deg	0.468
r_symmetry_xyhbond_nbd_refined	0.264
r_symmetry_nbd_refined	0.261
r_nbd_refined	0.213
r_nbd_other	0.212
r_xyhbond_nbd_refined	0.203
r_symmetry_nbd_other	0.19
r_nbtor_refined	0.173
r_ncsr_local_group_1	0.103
r_ncsr_local_group_6	0.103
r_ncsr_local_group_3	0.101
r_ncsr_local_group_4	0.1
r_symmetry_nbtor_other	0.076
r_ncsr_local_group_5	0.076
r_chiral_restr	0.072
r_ncsr_local_group_2	0.064
r_bond_refined_d	0.008
r_gen_planes_refined	0.007
r_bond_other_d	0.001
r_gen_planes_other	0.001

Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms	Number
Protein Atoms	9335
Nucleic Acid Atoms
Solvent Atoms	548
Heterogen Atoms	92

Software

Software
Software Name	Purpose
REFMAC	refinement
xia2	data reduction
xia2	data scaling
PHASER	phasing