8CI0

Maize Transketolase in complex with TPP and hydrolyzed (+)-Cornexistin


X-RAY DIFFRACTION

Starting Model(s)

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

Crystallization

Crystalization Experiments
IDMethodpHTemperatureDetails
1VAPOR DIFFUSION, SITTING DROP29128 % PEG 3350, 250 mM ammonium acetate
Crystal Properties
Matthews coefficientSolvent content
2.3748.13

Crystal Data

Unit Cell
Length ( Å )Angle ( ˚ )
a = 135.309α = 90
b = 135.309β = 90
c = 201.439γ = 120
Symmetry
Space GroupP 31 2 1

Diffraction

Diffraction Experiment
ID #Crystal IDScattering TypeData Collection TemperatureDetectorDetector TypeDetailsCollection DateMonochromatorProtocol
11x-ray100CCDOXFORD ONYX CCD2020-10-07MSINGLE WAVELENGTH
Radiation Source
ID #SourceTypeWavelength ListSynchrotron SiteBeamline
1SEALED TUBEOXFORD DIFFRACTION NOVA1.54

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
11.923.8394.40.064196.01157602
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)
11.920.175

Refinement

Statistics
Diffraction IDStructure Solution MethodCross Validation methodResolution (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-VALUE1.90223.727157559775494.2080.1550.15320.183611.924
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]
0.1270.0640.127-0.414
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg30.725
r_dihedral_angle_4_deg18.559
r_dihedral_angle_3_deg13.957
r_dihedral_angle_1_deg6.691
r_lrange_it4.267
r_lrange_other3.903
r_scangle_it2.638
r_scangle_other2.638
r_scbond_other1.711
r_scbond_it1.71
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg30.725
r_dihedral_angle_4_deg18.559
r_dihedral_angle_3_deg13.957
r_dihedral_angle_1_deg6.691
r_lrange_it4.267
r_lrange_other3.903
r_scangle_it2.638
r_scangle_other2.638
r_scbond_other1.711
r_scbond_it1.71
r_angle_refined_deg1.544
r_angle_other_deg1.488
r_mcangle_other1.347
r_mcangle_it1.346
r_mcbond_it0.919
r_mcbond_other0.915
r_symmetry_nbd_refined0.255
r_symmetry_xyhbond_nbd_refined0.245
r_nbd_refined0.216
r_nbd_other0.212
r_symmetry_nbd_other0.176
r_nbtor_refined0.167
r_xyhbond_nbd_refined0.13
r_chiral_restr0.084
r_symmetry_nbtor_other0.08
r_ncsr_local_group_10.052
r_ncsr_local_group_20.049
r_ncsr_local_group_30.043
r_symmetry_xyhbond_nbd_other0.027
r_bond_refined_d0.01
r_metal_ion_refined0.009
r_gen_planes_refined0.008
r_bond_other_d0.001
r_gen_planes_other0.001
Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen AtomsNumber
Protein Atoms15246
Nucleic Acid Atoms
Solvent Atoms2014
Heterogen Atoms104

Software

Software
Software NamePurpose
REFMACrefinement
CrysalisProdata reduction
XSCALEdata scaling
MOLREPphasing