2OBA

Pseudomonas aeruginosa 6-pyruvoyl tetrahydrobiopterin synthase


X-RAY DIFFRACTION

Starting Model(s)

Initial Refinement Model(s)
TypeSourceAccession CodeDetails
experimental modelPDB 1B66PDB ENTRY 1B66

Crystallization

Crystalization Experiments
IDMethodpHTemperatureDetails
1VAPOR DIFFUSION, SITTING DROP92980.2M lithium sulphate, 0.1M Tris HCl, 30% PEG3000 frozen in 70%paratone/30% mineral oil, pH 9, VAPOR DIFFUSION, SITTING DROP, temperature 298K
Crystal Properties
Matthews coefficientSolvent content
2.1542.8

Crystal Data

Unit Cell
Length ( Å )Angle ( ˚ )
a = 76.082α = 90
b = 87.521β = 90
c = 124.67γ = 90
Symmetry
Space GroupP 21 21 21

Diffraction

Diffraction Experiment
ID #Crystal IDScattering TypeData Collection TemperatureDetectorDetector TypeDetailsCollection DateMonochromatorProtocol
11x-ray100CCDADSC QUANTUM 2102006-10-07MSINGLE WAVELENGTH
Radiation Source
ID #SourceTypeWavelength ListSynchrotron SiteBeamline
1SYNCHROTRONAPS BEAMLINE 17-ID1APS17-ID

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
12.3242.2298.40.0414.13.33561033806
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)
12.322.494.80.2513.23372

Refinement

Statistics
Diffraction IDStructure Solution MethodCross Validation methodStarting modelResolution (High)Resolution (Low)Number Reflections (All)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 1B662.3342.223561033806176997.70.1890.1860.256RANDOM45.765
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]
4.14-1.47-2.66
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg37.834
r_dihedral_angle_4_deg23.364
r_dihedral_angle_3_deg17.421
r_dihedral_angle_1_deg6.367
r_scangle_it3.067
r_scbond_it1.917
r_angle_refined_deg1.488
r_mcangle_it1.162
r_mcbond_it0.723
r_nbtor_refined0.304
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg37.834
r_dihedral_angle_4_deg23.364
r_dihedral_angle_3_deg17.421
r_dihedral_angle_1_deg6.367
r_scangle_it3.067
r_scbond_it1.917
r_angle_refined_deg1.488
r_mcangle_it1.162
r_mcbond_it0.723
r_nbtor_refined0.304
r_nbd_refined0.203
r_xyhbond_nbd_refined0.185
r_symmetry_vdw_refined0.166
r_symmetry_hbond_refined0.153
r_chiral_restr0.111
r_bond_refined_d0.014
r_gen_planes_refined0.005
Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen AtomsNumber
Protein Atoms5950
Nucleic Acid Atoms
Solvent Atoms259
Heterogen Atoms6

Software

Software
Software NamePurpose
DENZOdata reduction
SCALEPACKdata scaling
REFMACrefinement
PDB_EXTRACTdata extraction
JDirectordata collection
HKL-2000data reduction
MOLREPphasing