1ZUA

Crystal Structure Of AKR1B10 Complexed With NADP+ And Tolrestat


X-RAY DIFFRACTION

Starting Model(s)

Initial Refinement Model(s)
TypeSourceAccession CodeDetails
experimental modelPDB 1FRBPDB ENTRY 1FRB

Crystallization

Crystalization Experiments
IDMethodpHTemperatureDetails
1VAPOR DIFFUSION, HANGING DROP9293PEG 6000, pH 9.0, VAPOR DIFFUSION, HANGING DROP, temperature 293K
Crystal Properties
Matthews coefficientSolvent content
2.0338.82

Crystal Data

Unit Cell
Length ( Å )Angle ( ˚ )
a = 89.113α = 90
b = 89.113β = 90
c = 78.433γ = 120
Symmetry
Space GroupP 61

Diffraction

Diffraction Experiment
ID #Crystal IDScattering TypeData Collection TemperatureDetectorDetector TypeDetailsCollection DateMonochromatorProtocol
11x-ray298CCDADSC QUANTUM 4r2005-05-03MSINGLE WAVELENGTH
Radiation Source
ID #SourceTypeWavelength ListSynchrotron SiteBeamline
1SYNCHROTRONESRF BEAMLINE ID14-41.00632ESRFID14-4

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
11.2555.0597.70.05655921519215130.4
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)
1.251.3950.423

Refinement

Statistics
Diffraction IDStructure Solution MethodCross Validation methodStarting modelResolution (High)Resolution (Low)Number Reflections (All)Number Reflections (Observed)Number Reflections (R-Free)Percent Reflections (Observed)R-Factor (All)R-Factor (Observed)R-WorkR-FreeR-Free Selection DetailsMean Isotropic B
X-RAY DIFFRACTIONMOLECULAR REPLACEMENTTHROUGHOUTPDB ENTRY 1FRB1.25209215192151486799.490.13130.130980.129620.15619RANDOM14.292
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]
0.090.050.09-0.14
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg39.273
r_dihedral_angle_4_deg15.449
r_dihedral_angle_3_deg13.309
r_sphericity_free12.875
r_dihedral_angle_1_deg7.76
r_sphericity_bonded5.696
r_scangle_it4.931
r_scbond_it3.978
r_mcangle_it2.731
r_mcbond_it2.451
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg39.273
r_dihedral_angle_4_deg15.449
r_dihedral_angle_3_deg13.309
r_sphericity_free12.875
r_dihedral_angle_1_deg7.76
r_sphericity_bonded5.696
r_scangle_it4.931
r_scbond_it3.978
r_mcangle_it2.731
r_mcbond_it2.451
r_angle_refined_deg2.094
r_rigid_bond_restr2.054
r_mcbond_other1.116
r_angle_other_deg1.007
r_symmetry_vdw_refined0.338
r_nbd_refined0.262
r_symmetry_vdw_other0.259
r_nbd_other0.204
r_symmetry_hbond_refined0.194
r_nbtor_refined0.192
r_xyhbond_nbd_refined0.183
r_chiral_restr0.126
r_nbtor_other0.092
r_bond_refined_d0.022
r_gen_planes_refined0.012
r_bond_other_d0.003
r_gen_planes_other0.002
Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen AtomsNumber
Protein Atoms2665
Nucleic Acid Atoms
Solvent Atoms411
Heterogen Atoms72

Software

Software
Software NamePurpose
REFMACrefinement
DENZOdata reduction
SCALEPACKdata scaling
MOLREPphasing