8Y12

NADPH complex of Imine Reductase from Pochonia chlamydosporia 170


X-RAY DIFFRACTION

Starting Model(s)

Initial Refinement Model(s)
TypeSourceAccession CodeDetails
in silico modelAlphaFold 

Crystallization

Crystalization Experiments
IDMethodpHTemperatureDetails
1VAPOR DIFFUSION, SITTING DROP291.15PEG 3350, magnesium chloride, Tris-Hcl 8.5
Crystal Properties
Matthews coefficientSolvent content
2.1743.45

Crystal Data

Unit Cell
Length ( Å )Angle ( ˚ )
a = 37.802α = 90
b = 114.091β = 99.34
c = 62.87γ = 90
Symmetry
Space GroupP 1 21 1

Diffraction

Diffraction Experiment
ID #Crystal IDScattering TypeData Collection TemperatureDetectorDetector TypeDetailsCollection DateMonochromatorProtocol
11x-ray100PIXELBruker PHOTON III2023-07-25MSINGLE WAVELENGTH
Radiation Source
ID #SourceTypeWavelength ListSynchrotron SiteBeamline
1LIQUID ANODEBRUKER METALJET1.34138

Data Collection

Overall
ID #Resolution (High)Resolution (Low)Percent Possible (Observed)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
12.0933.0899.10.053817.535.2930773
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)
12.092.1388.10.15374.332.67

Refinement

Statistics
Diffraction IDStructure Solution MethodCross Validation methodResolution (High)Resolution (Low)Number Reflections (Observed)Number Reflections (R-Free)Percent Reflections (Observed)R-Factor (Observed)R-Work (Depositor)R-Work (DCC)R-Free (Depositor)R-Free (DCC)R-Free Selection DetailsMean Isotropic B
X-RAY DIFFRACTIONMOLECULAR REPLACEMENTTHROUGHOUT2.133.0828926154099.440.185020.181280.1890.254890.2589RANDOM30.787
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]
4.540.65-1.85-2.75
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg36.847
r_dihedral_angle_4_deg16.525
r_dihedral_angle_3_deg16.296
r_dihedral_angle_1_deg6.315
r_long_range_B_refined5.46
r_long_range_B_other5.455
r_scangle_other3.953
r_mcangle_it3.116
r_mcangle_other3.115
r_scbond_it2.554
Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen AtomsNumber
Protein Atoms4221
Nucleic Acid Atoms
Solvent Atoms336
Heterogen Atoms110

Software

Software
Software NamePurpose
REFMACrefinement
SAINTdata scaling
SAINTdata reduction
PHASERphasing