4AST

The apo structure of a bacterial aldo-keto reductase AKR14A1


X-RAY DIFFRACTION

Starting Model(s)

Initial Refinement Model(s)
TypeSourceAccession CodeDetails
experimental modelPDB 1QRQPDB ENTRY 1QRQ

Crystallization

Crystalization Experiments
IDMethodpHTemperatureDetails
14.60.2M AMMONIUM ACETATE, 0.1M SODIUM ACETATE PH 4.6, 30% PEG4000
Crystal Properties
Matthews coefficientSolvent content
2.6553.7

Crystal Data

Unit Cell
Length ( Å )Angle ( ˚ )
a = 98.808α = 90
b = 144.317β = 96.51
c = 113.896γ = 90
Symmetry
Space GroupP 1 21 1

Diffraction

Diffraction Experiment
ID #Crystal IDScattering TypeData Collection TemperatureDetectorDetector TypeDetailsCollection DateMonochromatorProtocol
11x-ray100CCDRIGAKU CCDOSMIC2009-06-10MSINGLE WAVELENGTH
Radiation Source
ID #SourceTypeWavelength ListSynchrotron SiteBeamline
1ROTATING ANODERIGAKU MICROMAX-007

Data Collection

Overall
ID #Resolution (High)Resolution (Low)Percent Possible (Observed)R Merge I (Observed)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
12.395096.70.0719.83.31218982
Highest Resolution Shell
ID #Resolution (High)Resolution (Low)Percent Possible (All)Percent Possible (Observed)R Merge I (Observed)Mean I Over Sigma (Observed)RedundancyNumber Unique Reflections (All)
12.392.4390.10.52.22.5

Refinement

Statistics
Diffraction IDStructure Solution MethodCross Validation methodStarting modelResolution (High)Resolution (Low)Number Reflections (Observed)Number Reflections (R-Free)Percent Reflections (Observed)R-Factor (Observed)R-WorkR-FreeR-Free Selection DetailsMean Isotropic B
X-RAY DIFFRACTIONMOLECULAR REPLACEMENTTHROUGHOUTPDB ENTRY 1QRQ2.38113.16112710595993.850.241190.23920.27889RANDOM31.313
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]
0.5-11.57-2.3
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg36.78
r_dihedral_angle_4_deg20.25
r_dihedral_angle_3_deg14.609
r_dihedral_angle_1_deg5.544
r_angle_refined_deg1.686
r_angle_other_deg1.594
r_chiral_restr0.094
r_bond_refined_d0.016
r_bond_other_d0.01
r_gen_planes_refined0.01
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg36.78
r_dihedral_angle_4_deg20.25
r_dihedral_angle_3_deg14.609
r_dihedral_angle_1_deg5.544
r_angle_refined_deg1.686
r_angle_other_deg1.594
r_chiral_restr0.094
r_bond_refined_d0.016
r_bond_other_d0.01
r_gen_planes_refined0.01
r_gen_planes_other0.008
r_nbd_refined
r_nbd_other
r_nbtor_refined
r_nbtor_other
r_xyhbond_nbd_refined
r_xyhbond_nbd_other
r_metal_ion_refined
r_metal_ion_other
r_symmetry_vdw_refined
r_symmetry_vdw_other
r_symmetry_hbond_refined
r_symmetry_hbond_other
r_symmetry_metal_ion_refined
r_symmetry_metal_ion_other
r_mcbond_it
r_mcbond_other
r_mcangle_it
r_mcangle_other
r_scbond_it
r_scbond_other
r_scangle_it
r_scangle_other
r_long_range_B_refined
r_long_range_B_other
r_rigid_bond_restr
r_sphericity_free
r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen AtomsNumber
Protein Atoms19297
Nucleic Acid Atoms
Solvent Atoms681
Heterogen Atoms

Software

Software
Software NamePurpose
REFMACrefinement
HKL-2000data reduction
HKL-2000data scaling
PHASERphasing