7R5T

CRYSTAL STRUCTURE OF E.coli ALCOHOL DEHYDROGENASE - FucO MUTANT F254I COMPLEXED WITH FE, NADH, AND GLYCEROL


X-RAY DIFFRACTION

Starting Model(s)

Initial Refinement Model(s)
TypeSourceAccession CodeDetails
experimental modelPDB 1RRM 

Crystallization

Crystalization Experiments
IDMethodpHTemperatureDetails
1VAPOR DIFFUSION, SITTING DROP5.5295.150.2M Magnesium chloride hexahydrate; 0.1M Bis-Tris, pH 5.5; 25% w/v PEG 3350
Crystal Properties
Matthews coefficientSolvent content
2.2846.07

Crystal Data

Unit Cell
Length ( Å )Angle ( ˚ )
a = 69.559α = 90
b = 54.329β = 99.97
c = 101.795γ = 90
Symmetry
Space GroupP 1 21 1

Diffraction

Diffraction Experiment
ID #Crystal IDScattering TypeData Collection TemperatureDetectorDetector TypeDetailsCollection DateMonochromatorProtocol
11x-ray100PIXELDECTRIS PILATUS3 6M2021-05-11MSINGLE WAVELENGTH
Radiation Source
ID #SourceTypeWavelength ListSynchrotron SiteBeamline
1SYNCHROTRONDIAMOND BEAMLINE I240.9999DiamondI24

Data Collection

Overall
ID #Resolution (High)Resolution (Low)Percent Possible (Observed)Rpim I (All)CC (Half)Net I Over Average Sigma (I)RedundancyNumber Reflections (All)Number Reflections (Observed)Observed Criterion Sigma (F)Observed Criterion Sigma (I)B (Isotropic) From Wilson Plot
11.8561.84199.90.0560.9937.33.26421319.5
Highest Resolution Shell
ID #Resolution (High)Resolution (Low)Percent Possible (All)Percent Possible (Observed)Rpim I (All)CC (Half)Mean I Over Sigma (Observed)RedundancyNumber Unique Reflections (All)
11.851.891000.2730.851.93.3

Refinement

Statistics
Diffraction IDStructure Solution MethodCross Validation methodStarting modelResolution (High)Resolution (Low)Number Reflections (Observed)Number Reflections (R-Free)Percent Reflections (Observed)R-Factor (All)R-WorkR-FreeMean Isotropic B
X-RAY DIFFRACTIONMOLECULAR REPLACEMENTFREE R-VALUE1RRM1.8561.84164190317699.8520.1840.18240.215426.386
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]
-2.815-0.7943.146-0.049
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg34.758
r_dihedral_angle_4_deg14.28
r_dihedral_angle_3_deg12.215
r_dihedral_angle_1_deg6.436
r_lrange_it4.015
r_lrange_other3.993
r_scangle_it2.855
r_scangle_other2.854
r_mcangle_it2.03
r_mcangle_other2.03
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg34.758
r_dihedral_angle_4_deg14.28
r_dihedral_angle_3_deg12.215
r_dihedral_angle_1_deg6.436
r_lrange_it4.015
r_lrange_other3.993
r_scangle_it2.855
r_scangle_other2.854
r_mcangle_it2.03
r_mcangle_other2.03
r_scbond_it1.771
r_scbond_other1.771
r_mcbond_it1.33
r_mcbond_other1.33
r_angle_refined_deg1.3
r_angle_other_deg1.254
r_nbd_refined0.196
r_symmetry_nbd_other0.166
r_nbd_other0.157
r_nbtor_refined0.148
r_symmetry_nbd_refined0.148
r_xyhbond_nbd_refined0.135
r_symmetry_nbtor_other0.075
r_symmetry_xyhbond_nbd_refined0.075
r_chiral_restr0.061
r_bond_refined_d0.005
r_gen_planes_refined0.005
r_bond_other_d0.001
r_gen_planes_other0.001
Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen AtomsNumber
Protein Atoms5692
Nucleic Acid Atoms
Solvent Atoms239
Heterogen Atoms210

Software

Software
Software NamePurpose
REFMACrefinement
DIALSdata reduction
Aimlessdata scaling
REFMACphasing