8GIL

L-threonine 3-Dehydrogenase from Trypanosoma cruzi (apo form)

X-RAY DIFFRACTION

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Crystallization

Crystalization Experiments
ID	Method	pH	Temperature	Details
1	VAPOR DIFFUSION, SITTING DROP	5.5	291.15	25% PEG 3350, 200 mM ammonium acetate and 100 mM Bis-Tris pH 5.5

Crystal Properties
Matthews coefficient	Solvent content
1.976	37.781

Crystal Data

Unit Cell
Length ( Å )	Angle ( ˚ )
a = 46.685	α = 90
b = 81.834	β = 90.546
c = 83.674	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 PILATUS 2M		2021-04-02	M	SINGLE WAVELENGTH

Radiation Source
ID #	Source	Type	Wavelength List	Synchrotron Site	Beamline
1	SYNCHROTRON	LNLS SIRIUS BEAMLINE MANACA	0.977180	LNLS SIRIUS	MANACA

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	2.1	46.73	99.1	0.995	8.4	4.7		36424

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	2.1	2.16	98.6		0.595		4.5

Refinement

Statistics
Diffraction ID	Structure Solution Method	Cross Validation method	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	THROUGHOUT	2.1	46.727	36369	2004	98.719	0.203	0.1998	0.2581	31.969

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]
-0.286		1.531	1.449		-1.191

RMS Deviations
Key	Refinement Restraint Deviation
r_dihedral_angle_2_deg	30.55
r_dihedral_angle_4_deg	19.416
r_dihedral_angle_3_deg	17.344
r_dihedral_angle_1_deg	7.192
r_lrange_it	6.577
r_lrange_other	6.559
r_scangle_it	4.567
r_scangle_other	4.565
r_mcangle_it	3.527
r_mcangle_other	3.526
r_scbond_it	3.141
r_scbond_other	3.141
r_mcbond_it	2.384
r_mcbond_other	2.383
r_angle_other_deg	2.364
r_angle_refined_deg	1.744
r_nbd_other	0.25
r_symmetry_nbd_other	0.235
r_nbd_refined	0.233
r_symmetry_nbd_refined	0.227
r_nbtor_refined	0.187
r_chiral_restr	0.144
r_xyhbond_nbd_refined	0.143
r_symmetry_xyhbond_nbd_refined	0.11
r_symmetry_nbtor_other	0.087
r_symmetry_xyhbond_nbd_other	0.05
r_bond_other_d	0.035
r_bond_refined_d	0.014
r_gen_planes_other	0.008
r_gen_planes_refined	0.006

Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms	Number
Protein Atoms	4977
Nucleic Acid Atoms
Solvent Atoms	86
Heterogen Atoms	2

Software

Software
Software Name	Purpose
MxCuBE	data collection
XDS	data reduction
Aimless	data scaling
PHASER	phasing
REFMAC	refinement
Coot	model building
PDB_EXTRACT	data extraction