2QJ8

Crystal structure of an aspartoacylase family protein (mlr6093) from mesorhizobium loti maff303099 at 2.00 A resolution


X-RAY DIFFRACTION

Crystallization

Crystalization Experiments
IDMethodpHTemperatureDetails
1VAPOR DIFFUSION, SITTING DROP277NANODROP, 20.0% PEG 3350, 0.2M Potassium citrate, VAPOR DIFFUSION, SITTING DROP, temperature 277K
Crystal Properties
Matthews coefficientSolvent content
2.2946.3

Crystal Data

Unit Cell
Length ( Å )Angle ( ˚ )
a = 81.054α = 90
b = 86.14β = 90
c = 94.632γ = 90
Symmetry
Space GroupP 21 21 21

Diffraction

Diffraction Experiment
ID #Crystal IDScattering TypeData Collection TemperatureDetectorDetector TypeDetailsCollection DateMonochromatorProtocol
11x-ray100CCDADSC QUANTUM 41m long Rh coated bent cylindrical mirror for horizontal and vertical focusing2007-06-09MSINGLE WAVELENGTH
Radiation Source
ID #SourceTypeWavelength ListSynchrotron SiteBeamline
1SYNCHROTRONSSRL BEAMLINE BL1-50.978662SSRLBL1-5

Data Collection

Overall
ID #Resolution (High)Resolution (Low)Percent Possible (Observed)R Merge I (Observed)R Sym 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
1229.64399.80.1050.10511.54.64540226.79
Highest Resolution Shell
ID #Resolution (High)Resolution (Low)Percent Possible (All)Percent Possible (Observed)R Merge I (Observed)R-Sym I (Observed)Mean I Over Sigma (Observed)RedundancyNumber Unique Reflections (All)
122.0598.70.7820.7821.73.83268

Refinement

Statistics
Diffraction IDStructure Solution MethodCross Validation methodResolution (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 DIFFRACTIONSADTHROUGHOUT229.64345330228699.770.2090.2070.254RANDOM24.569
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]
-1.57-0.251.82
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg31.683
r_dihedral_angle_3_deg11.336
r_dihedral_angle_4_deg11.075
r_scangle_it5.896
r_scbond_it4.346
r_dihedral_angle_1_deg4.003
r_mcangle_it2.53
r_mcbond_it1.792
r_angle_refined_deg1.786
r_angle_other_deg1.367
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg31.683
r_dihedral_angle_3_deg11.336
r_dihedral_angle_4_deg11.075
r_scangle_it5.896
r_scbond_it4.346
r_dihedral_angle_1_deg4.003
r_mcangle_it2.53
r_mcbond_it1.792
r_angle_refined_deg1.786
r_angle_other_deg1.367
r_mcbond_other0.663
r_symmetry_hbond_refined0.193
r_xyhbond_nbd_refined0.169
r_nbd_refined0.165
r_nbtor_refined0.16
r_nbd_other0.149
r_symmetry_vdw_other0.133
r_chiral_restr0.103
r_nbtor_other0.082
r_symmetry_vdw_refined0.075
r_bond_refined_d0.014
r_gen_planes_refined0.006
r_bond_other_d0.004
r_gen_planes_other0.002
Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen AtomsNumber
Protein Atoms4499
Nucleic Acid Atoms
Solvent Atoms282
Heterogen Atoms

Software

Software
Software NamePurpose
REFMACrefinement
PHENIXrefinement
SHELXphasing
MolProbitymodel building
SCALAdata scaling
PDB_EXTRACTdata extraction
ADSCdata collection
MOSFLMdata reduction
SHELXDphasing
autoSHARPphasing