5HUE

DAHP synthase from Corynebacterium glutamicum in complex with tryptophan


X-RAY DIFFRACTION

Starting Model(s)

Initial Refinement Model(s)
TypeSourceAccession CodeDetails
experimental modelPDB 2B7O 

Crystallization

Crystalization Experiments
IDMethodpHTemperatureDetails
1VAPOR DIFFUSION, HANGING DROP6.6277100 mM NH4 formate, pH 6.6, 100 mM KSCN, 30% PEG 2000 MME
Crystal Properties
Matthews coefficientSolvent content
4.6273.36

Crystal Data

Unit Cell
Length ( Å )Angle ( ˚ )
a = 109.189α = 90
b = 109.189β = 90
c = 279.897γ = 120
Symmetry
Space GroupP 62 2 2

Diffraction

Diffraction Experiment
ID #Crystal IDScattering TypeData Collection TemperatureDetectorDetector TypeDetailsCollection DateMonochromatorProtocol
11x-ray100PIXELDECTRIS PILATUS 6M2014-07-06MSINGLE WAVELENGTH
Radiation Source
ID #SourceTypeWavelength ListSynchrotron SiteBeamline
1SYNCHROTRONESRF BEAMLINE ID290.97625ESRFID29

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
12.6537.0199.70.289.3917.3629830
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)
12.652.898.87.2760.3917.85

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 REPLACEMENTTHROUGHOUT2B7O2.6537.0128128143699.810.248570.246750.28463RANDOM108.112
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]
3.611.813.61-11.73
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg38.518
r_dihedral_angle_3_deg16.251
r_dihedral_angle_4_deg13.4
r_long_range_B_other9.192
r_long_range_B_refined9.19
r_dihedral_angle_1_deg6.122
r_mcangle_it6.117
r_mcangle_other6.116
r_scangle_other5.73
r_mcbond_other3.784
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg38.518
r_dihedral_angle_3_deg16.251
r_dihedral_angle_4_deg13.4
r_long_range_B_other9.192
r_long_range_B_refined9.19
r_dihedral_angle_1_deg6.122
r_mcangle_it6.117
r_mcangle_other6.116
r_scangle_other5.73
r_mcbond_other3.784
r_mcbond_it3.783
r_scbond_it3.416
r_scbond_other3.411
r_angle_refined_deg1.257
r_angle_other_deg0.921
r_chiral_restr0.064
r_bond_refined_d0.007
r_gen_planes_refined0.004
r_bond_other_d0.003
r_gen_planes_other0.001
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_scangle_it
r_rigid_bond_restr
r_sphericity_free
r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen AtomsNumber
Protein Atoms3456
Nucleic Acid Atoms
Solvent Atoms21
Heterogen Atoms94

Software

Software
Software NamePurpose
REFMACrefinement
PHASERphasing
XDSdata reduction
Aimlessdata scaling