5A4U

AtGSTF2 from Arabidopsis thaliana in complex with indole-3-aldehyde


X-RAY DIFFRACTION

Starting Model(s)

Initial Refinement Model(s)
TypeSourceAccession CodeDetails
experimental modelPDB 1GNWPDB ENTRY 1GNW

Crystallization

Crystalization Experiments
IDMethodpHTemperatureDetails
170.1M PCTP (PROPIONIC ACID, CACODYLATE, BIS-TRIS PROPANE SYSTEM, 15% (W/V) PEG 1.5K PH 7.0. PROTEIN AT 10 MG PER ML
Crystal Properties
Matthews coefficientSolvent content
2.142

Crystal Data

Unit Cell
Length ( Å )Angle ( ˚ )
a = 87.86α = 90
b = 94.41β = 90
c = 152.38γ = 90
Symmetry
Space GroupP 21 21 21

Diffraction

Diffraction Experiment
ID #Crystal IDScattering TypeData Collection TemperatureDetectorDetector TypeDetailsCollection DateMonochromatorProtocol
11x-ray120PIXELDECTRIS PILATUS 6M2014-10-18MSINGLE WAVELENGTH
Radiation Source
ID #SourceTypeWavelength ListSynchrotron SiteBeamline
1SYNCHROTRONDIAMOND BEAMLINE I03DiamondI03

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
1294.411000.0817.28.1862852
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)
122.051000.633.38

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 1GNW280.3881894431199.970.199350.197570.23353RANDOM32.87
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]
-1.443.38-1.94
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg34.298
r_dihedral_angle_4_deg17.111
r_dihedral_angle_3_deg13.894
r_dihedral_angle_1_deg6.358
r_mcangle_it3.924
r_scbond_it3.71
r_mcbond_it2.961
r_mcbond_other2.96
r_angle_other_deg1.919
r_angle_refined_deg1.849
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg34.298
r_dihedral_angle_4_deg17.111
r_dihedral_angle_3_deg13.894
r_dihedral_angle_1_deg6.358
r_mcangle_it3.924
r_scbond_it3.71
r_mcbond_it2.961
r_mcbond_other2.96
r_angle_other_deg1.919
r_angle_refined_deg1.849
r_chiral_restr0.107
r_bond_refined_d0.017
r_gen_planes_refined0.013
r_bond_other_d0.012
r_gen_planes_other0.01
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_mcangle_other
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 Atoms9897
Nucleic Acid Atoms
Solvent Atoms404
Heterogen Atoms108

Software

Software
Software NamePurpose
REFMACrefinement
XDSdata reduction
SCALAdata scaling
MOLREPphasing