4AEC

Crystal Structure of the Arabidopsis thaliana O-Acetyl-Serine-(Thiol)- Lyase C


X-RAY DIFFRACTION

Starting Model(s)

Initial Refinement Model(s)
TypeSourceAccession CodeDetails
experimental modelPDB 1Z7WPDB ENTRY 1Z7W

Crystallization

Crystalization Experiments
IDMethodpHTemperatureDetails
129118C, 1:1 15MG/ML PROTEIN MIXED WITH: 28% PEG 8000 100 MM MES, PH 6.5 300 MM NA ACETATE SUPPLEMENTED BY 15% GLYCEROL
Crystal Properties
Matthews coefficientSolvent content
2.2645.07

Crystal Data

Unit Cell
Length ( Å )Angle ( ˚ )
a = 65.39α = 90
b = 65.39β = 90
c = 293.05γ = 90
Symmetry
Space GroupP 41 21 2

Diffraction

Diffraction Experiment
ID #Crystal IDScattering TypeData Collection TemperatureDetectorDetector TypeDetailsCollection DateMonochromatorProtocol
11x-ray100CCDADSC QUANTUM 315rMSINGLE WAVELENGTH
Radiation Source
ID #SourceTypeWavelength ListSynchrotron SiteBeamline
1SYNCHROTRONESRF BEAMLINE ID29ESRFID29

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
12.45099.70.0926.115.5246842
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)
12.42.599.60.546.315.5

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 1Z7W2.419.942468413001000.183060.180380.23315RANDOM48.281
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]
-0.3-0.30.61
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg38.135
r_dihedral_angle_4_deg20.183
r_dihedral_angle_3_deg17.164
r_dihedral_angle_1_deg5.822
r_scangle_it3.409
r_scbond_it2.205
r_angle_refined_deg1.735
r_mcangle_it1.166
r_mcbond_it0.657
r_chiral_restr0.106
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg38.135
r_dihedral_angle_4_deg20.183
r_dihedral_angle_3_deg17.164
r_dihedral_angle_1_deg5.822
r_scangle_it3.409
r_scbond_it2.205
r_angle_refined_deg1.735
r_mcangle_it1.166
r_mcbond_it0.657
r_chiral_restr0.106
r_bond_refined_d0.017
r_gen_planes_refined0.008
r_bond_other_d
r_angle_other_deg
r_gen_planes_other
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_other
r_mcangle_other
r_scbond_other
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 Atoms4770
Nucleic Acid Atoms
Solvent Atoms121
Heterogen Atoms44

Software

Software
Software NamePurpose
REFMACrefinement
PHASERphasing