8V16 | pdb_00008v16

Esterase with a monomeric cooperative, hysteresis or allokairy

X-RAY DIFFRACTION

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Starting Model(s)

Initial Refinement Model(s)
Type	Source	Accession Code	Details
experimental model	PDB	2XUA

Crystallization

Crystalization Experiments
ID	Method	pH	Temperature	Details
1	VAPOR DIFFUSION, SITTING DROP	6.5	291.15	0.2 M Ammonium sulfate, 0.1 M Sodium cacodylate trihydrate pH 6.5 and, 30% w/v Polyethylene glycol 8,000

Crystal Properties
Matthews coefficient	Solvent content
2.35	47.67

Crystal Data

Unit Cell
Length ( Å )	Angle ( ˚ )
a = 72.076	α = 90
b = 105.891	β = 90
c = 145.371	γ = 90

Symmetry
Space Group	P 21 21 21

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	vertical focusing mirror (side-bounce sagittal cylindrical mirror)	2021-10-19	M	SINGLE WAVELENGTH

Radiation Source
ID #	Source	Type	Wavelength List	Synchrotron Site	Beamline
1	SYNCHROTRON	LNLS SIRIUS BEAMLINE MANACA	0.9772	LNLS SIRIUS	MANACA

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	1.77	30	99.7	0.11	1	11.1	6.8					36

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	1.77	1.87			0.37

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	1.9	30	88267	4413	99.959	0.182	0.1797	0.189	0.2171	0.2235	33.727

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]
1.215			0.256		-1.471

RMS Deviations
Key	Refinement Restraint Deviation
r_dihedral_angle_6_deg	15.795
r_dihedral_angle_3_deg	15.326
r_dihedral_angle_2_deg	10.908
r_lrange_it	7.889
r_lrange_other	7.888
r_scangle_it	6.268
r_scangle_other	6.267
r_dihedral_angle_1_deg	6.134
r_scbond_it	4.208
r_scbond_other	4.207
r_mcangle_it	3.953
r_mcangle_other	3.953
r_mcbond_it	2.967
r_mcbond_other	2.967
r_angle_refined_deg	1.484
r_angle_other_deg	0.49
r_symmetry_xyhbond_nbd_refined	0.292
r_nbd_refined	0.221
r_nbd_other	0.202
r_symmetry_nbd_refined	0.2
r_symmetry_nbd_other	0.187
r_nbtor_refined	0.176
r_xyhbond_nbd_refined	0.136
r_symmetry_nbtor_other	0.078
r_chiral_restr	0.071
r_symmetry_xyhbond_nbd_other	0.045
r_bond_refined_d	0.008
r_gen_planes_refined	0.008
r_bond_other_d	0.001
r_gen_planes_other	0.001

Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms	Number
Protein Atoms	8190
Nucleic Acid Atoms
Solvent Atoms	357
Heterogen Atoms	24

Software

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