7P7Y

X-ray structure of Lactobacillus kefir alcohol dehydrogenase mutant Q126K

X-RAY DIFFRACTION

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Crystallization

Crystalization Experiments
ID	Method	pH	Temperature	Details
1	MICROBATCH	7	293	50 mM Tris/HCl, 25 mM magnesium chloride, 5 % (w/v) PEG 550, 10 mM HEPES

Crystal Properties
Matthews coefficient	Solvent content
2.42	49.08

Crystal Data

Unit Cell
Length ( Å )	Angle ( ˚ )
a = 55.84	α = 90
b = 80.04	β = 90
c = 114.93	γ = 90

Symmetry
Space Group	I 2 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-F		2020-09-14	M	SINGLE WAVELENGTH

Radiation Source
ID #	Source	Type	Wavelength List	Synchrotron Site	Beamline
1	SYNCHROTRON	SLS BEAMLINE X06DA	1.0	SLS	X06DA

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	1.25	50	99.2	0.033	1	49.61	11.62		71194

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	1.25	1.32	95.3		0.109	0.993	14.32

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	R-Free	Mean Isotropic B
X-RAY DIFFRACTION	MOLECULAR REPLACEMENT	FREE R-VALUE	7P36	1.25	45.796	70930	1419	99.347	0.101	0.1005	0.1175	9.684

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]
-0.207			0.792		-0.584

RMS Deviations
Key	Refinement Restraint Deviation
r_dihedral_angle_2_deg	32.007
r_dihedral_angle_4_deg	14.938
r_dihedral_angle_3_deg	11.72
r_dihedral_angle_1_deg	6.508
r_lrange_it	2.336
r_lrange_other	1.906
r_rigid_bond_restr	1.872
r_angle_refined_deg	1.778
r_scangle_it	1.666
r_scangle_other	1.665
r_angle_other_deg	1.664
r_scbond_it	1.347
r_scbond_other	1.347
r_mcangle_it	1.1
r_mcangle_other	1.099
r_mcbond_it	0.866
r_mcbond_other	0.866
r_nbd_refined	0.234
r_symmetry_nbd_refined	0.19
r_nbd_other	0.181
r_nbtor_refined	0.177
r_symmetry_nbd_other	0.17
r_symmetry_xyhbond_nbd_refined	0.131
r_xyhbond_nbd_refined	0.13
r_chiral_restr	0.112
r_symmetry_nbtor_other	0.085
r_bond_refined_d	0.013
r_gen_planes_refined	0.009
r_bond_other_d	0.001
r_gen_planes_other	0.001

Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms	Number
Protein Atoms	1865
Nucleic Acid Atoms
Solvent Atoms	344
Heterogen Atoms	12

Software

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