9HMT | pdb_00009hmt

Crystal structure of Arabidopsis thaliana Acyl-ACP Thioesterase (At-FatA) complexed with methiozolin-fluorine

X-RAY DIFFRACTION

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Starting Model(s)

Initial Refinement Model(s)
Type	Source	Accession Code	Details
experimental model	PDB	9GRR

Crystallization

Crystalization Experiments
ID	Method	pH	Temperature	Details
1	VAPOR DIFFUSION, SITTING DROP		293	0.1M sodium acetate pH4.6, 1.5M ammonium sulphate

Crystal Properties
Matthews coefficient	Solvent content
2.2	44.11

Crystal Data

Unit Cell
Length ( Å )	Angle ( ˚ )
a = 97.33	α = 90
b = 97.33	β = 90
c = 124.94	γ = 90

Symmetry
Space Group	I 4 2 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 PILATUS 2M		2016-02-08	M	SINGLE WAVELENGTH

Radiation Source
ID #	Source	Type	Wavelength List	Synchrotron Site	Beamline
1	SYNCHROTRON	DIAMOND BEAMLINE I03	0.9763	Diamond	I03

Data Collection

Overall
ID #	Resolution (High)	Resolution (Low)	Percent Possible (Observed)	Rrim 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	1.38	76.78	99.3	0.06	1	17	8.2		61206

Highest Resolution Shell
ID #	Resolution (High)	Resolution (Low)	Percent Possible (All)	Percent Possible (Observed)	Rrim I (All)	CC (Half)	Mean I Over Sigma (Observed)	Redundancy	Number Unique Reflections (All)
1	1.38	1.42	94		1.13	0.5	1.6	5.4

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 (Depositor)	R-Work (DCC)	R-Free (Depositor)	R-Free (DCC)	Mean Isotropic B
X-RAY DIFFRACTION	MOLECULAR REPLACEMENT	FREE R-VALUE	1.38	76.78	61205	3083	99.285	0.191	0.1904	0.1993	0.1935	0.2006	22.402

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]
-0.236			-0.236		0.471

RMS Deviations
Key	Refinement Restraint Deviation
r_dihedral_angle_2_deg	33.687
r_dihedral_angle_4_deg	15.679
r_dihedral_angle_3_deg	12.93
r_dihedral_angle_1_deg	6.722
r_lrange_it	5.167
r_lrange_other	5.155
r_scangle_other	4.243
r_scangle_it	4.239
r_scbond_other	2.732
r_scbond_it	2.729
r_mcangle_it	2.606
r_mcangle_other	2.605
r_mcbond_other	1.736
r_mcbond_it	1.735
r_angle_refined_deg	1.592
r_angle_other_deg	1.509
r_symmetry_nbd_refined	0.266
r_nbd_other	0.229
r_nbd_refined	0.199
r_symmetry_nbd_other	0.193
r_nbtor_refined	0.169
r_xyhbond_nbd_refined	0.126
r_symmetry_xyhbond_nbd_refined	0.093
r_symmetry_nbtor_other	0.087
r_chiral_restr	0.079
r_bond_refined_d	0.01
r_gen_planes_refined	0.008
r_bond_other_d	0.002
r_gen_planes_other	0.001

Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms	Number
Protein Atoms	2094
Nucleic Acid Atoms
Solvent Atoms	169
Heterogen Atoms	35

Software

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