6T6Q | pdb_00006t6q

Crystal structure of Toxoplasma gondii Morn1 (extended conformation).

X-RAY DIFFRACTION

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Starting Model(s)

Initial Refinement Model(s)
Type	Source	Accession Code	Details
experimental model	PDB	6T4D

Crystallization

Crystalization Experiments
ID	Method	pH	Temperature	Details
1	VAPOR DIFFUSION, SITTING DROP		295.15	0.1 M Tris-HCl pH 8.2, 15% PEG 3350, 0.2 M NaCl

Crystal Properties
Matthews coefficient	Solvent content
2.56	51.97

Crystal Data

Unit Cell
Length ( Å )	Angle ( ˚ )
a = 53.916	α = 90
b = 53.916	β = 90
c = 348.849	γ = 90

Symmetry
Space Group	P 43 21 2

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 PILATUS3 6M		2017-03-03	M	SINGLE WAVELENGTH

Radiation Source
ID #	Source	Type	Wavelength List	Synchrotron Site	Beamline
1	SYNCHROTRON	ESRF BEAMLINE ID30B	0.967	ESRF	ID30B

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	2.9	48.92	99.1	0.14	0.992	11.8	8.4		12331

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	2.9	3.08			2.252	0.772	0.5	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 (Depositor)	R-Work (DCC)	R-Free (Depositor)	R-Free (DCC)	Mean Isotropic B
X-RAY DIFFRACTION	MOLECULAR REPLACEMENT	FREE R-VALUE	6T4D	2.902	48.92	12254	593	98.902	0.278	0.2761	0.28	0.3111	0.31	86.807

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]
6.455			6.455		-12.911

RMS Deviations
Key	Refinement Restraint Deviation
r_dihedral_angle_2_deg	28.274
r_dihedral_angle_3_deg	17.083
r_dihedral_angle_4_deg	15.388
r_dihedral_angle_1_deg	6.824
r_lrange_it	4.439
r_lrange_other	4.438
r_mcangle_it	2.757
r_mcangle_other	2.757
r_scangle_it	2.6
r_scangle_other	2.599
r_angle_other_deg	2.45
r_mcbond_it	1.61
r_mcbond_other	1.609
r_scbond_it	1.456
r_scbond_other	1.455
r_angle_refined_deg	1.213
r_nbd_other	0.243
r_symmetry_nbd_other	0.204
r_symmetry_nbd_refined	0.202
r_nbd_refined	0.191
r_nbtor_refined	0.173
r_xyhbond_nbd_refined	0.106
r_symmetry_nbtor_other	0.067
r_symmetry_xyhbond_nbd_refined	0.065
r_bond_other_d	0.038
r_chiral_restr	0.038
r_gen_planes_other	0.004
r_gen_planes_refined	0.003
r_bond_refined_d	0.002

Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms	Number
Protein Atoms	3319
Nucleic Acid Atoms
Solvent Atoms
Heterogen Atoms

Software

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