7P36

X-ray structure of Lactobacillus kefir alcohol dehydrogenase (wild type)

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 3000, 10 mM HEPES

Crystal Properties
Matthews coefficient	Solvent content
2.39	48.52

Crystal Data

Unit Cell
Length ( Å )	Angle ( ˚ )
a = 55.87	α = 90
b = 79.97	β = 90
c = 114.59	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		2020-06-25	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	1.14	45.8	100	0.023	1	71.35	12.81		93534

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	1.14	1.21	99.8		0.083	0.998	26.89	11.99

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	4RF4	1.14	45.8	93486	4675	99.991	0.094	0.0931	0.1072	8.254

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]
0.074			-0.093		0.019

RMS Deviations
Key	Refinement Restraint Deviation
r_dihedral_angle_2_deg	30.685
r_dihedral_angle_4_deg	15.548
r_dihedral_angle_3_deg	10.29
r_dihedral_angle_1_deg	6.66
r_lrange_it	2.902
r_lrange_other	2.32
r_rigid_bond_restr	2.005
r_angle_refined_deg	1.915
r_angle_other_deg	1.677
r_scangle_it	1.453
r_scangle_other	1.453
r_scbond_it	1.159
r_scbond_other	1.159
r_mcangle_it	0.903
r_mcangle_other	0.903
r_mcbond_it	0.769
r_mcbond_other	0.769
r_symmetry_nbd_refined	0.246
r_nbd_refined	0.232
r_nbd_other	0.218
r_nbtor_refined	0.178
r_symmetry_nbd_other	0.171
r_xyhbond_nbd_refined	0.159
r_chiral_restr	0.11
r_symmetry_xyhbond_nbd_refined	0.104
r_symmetry_nbtor_other	0.087
r_bond_refined_d	0.013
r_gen_planes_refined	0.009
r_gen_planes_other	0.002
r_bond_other_d	0.001

Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms	Number
Protein Atoms	1865
Nucleic Acid Atoms
Solvent Atoms	387
Heterogen Atoms	19

Software

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