8W98

ESTS1 phthalate ester degrading esterase from Sulfobacillus acidophilus in complex with monoethylhexyl phtahalate and 2-ethylhexanol

X-RAY DIFFRACTION

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Starting Model(s)

Initial Refinement Model(s)
Type	Source	Accession Code	Details
in silico model	AlphaFold

Crystallization

Crystalization Experiments
ID	Method	pH	Temperature	Details
1	VAPOR DIFFUSION	7	293	Sodium Malonate, HEPES pH 7, Jeffamine ED-2001

Crystal Properties
Matthews coefficient	Solvent content
2.257173	45.54092

Crystal Data

Unit Cell
Length ( Å )	Angle ( ˚ )
a = 108.004	α = 90
b = 108.004	β = 90
c = 44.662	γ = 120

Symmetry
Space Group	P 63

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	RIGAKU HyPix-6000HE		2023-08-20	M	SINGLE WAVELENGTH

Radiation Source
ID #	Source	Type	Wavelength List	Synchrotron Site	Beamline
1	ROTATING ANODE	RIGAKU MICROMAX-007 HF	1.5418

Data Collection

Overall
ID #	Resolution (High)	Resolution (Low)	Percent Possible (Observed)	R Merge I (Observed)	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	1.9	25.955	100	0.191	10.5	3.01		39498

Highest Resolution Shell
ID #	Resolution (High)	Resolution (Low)	Percent Possible (All)	Percent Possible (Observed)	Rpim I (All)	Mean I Over Sigma (Observed)	Redundancy	Number Unique Reflections (All)
1	1.9	1.94			0.814	1.1

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	FREE R-VALUE	1.9	25.955	23664	1164	99.772	0.186	0.1842	0.2172	28.122

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]
-0.004	-0.002		-0.004		0.014

RMS Deviations
Key	Refinement Restraint Deviation
r_dihedral_angle_6_deg	16.376
r_dihedral_angle_3_deg	15.599
r_dihedral_angle_2_deg	14.521
r_dihedral_angle_1_deg	6.455
r_lrange_it	6.274
r_lrange_other	6.238
r_scangle_it	4.702
r_scangle_other	4.701
r_scbond_it	3.042
r_scbond_other	3.041
r_mcangle_it	2.859
r_mcangle_other	2.859
r_mcbond_it	1.968
r_mcbond_other	1.968
r_angle_refined_deg	1.319
r_angle_other_deg	0.872
r_nbd_other	0.276
r_nbd_refined	0.225
r_symmetry_nbd_other	0.202
r_symmetry_nbd_refined	0.2
r_nbtor_refined	0.181
r_xyhbond_nbd_refined	0.176
r_symmetry_xyhbond_nbd_refined	0.141
r_symmetry_nbtor_other	0.081
r_chiral_restr	0.061
r_bond_other_d	0.038
r_bond_refined_d	0.007
r_gen_planes_refined	0.007
r_gen_planes_other	0.001

Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms	Number
Protein Atoms	2295
Nucleic Acid Atoms
Solvent Atoms	70
Heterogen Atoms	32

Software

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