6T3V

Psychrophilic aromatic amino acids aminotransferase from Psychrobacter sp. B6 cocrystalized with substrate analog - malic acid


X-RAY DIFFRACTION

Starting Model(s)

Initial Refinement Model(s)
TypeSourceAccession CodeDetails
experimental modelPDB 4RKC 

Crystallization

Crystalization Experiments
IDMethodpHTemperatureDetails
1VAPOR DIFFUSION, HANGING DROP72912.1 M DL-malic acid pH 7.0
Crystal Properties
Matthews coefficientSolvent content
3.2161.71

Crystal Data

Unit Cell
Length ( Å )Angle ( ˚ )
a = 90.209α = 90
b = 90.209β = 90
c = 241.75γ = 120
Symmetry
Space GroupP 65 2 2

Diffraction

Diffraction Experiment
ID #Crystal IDScattering TypeData Collection TemperatureDetectorDetector TypeDetailsCollection DateMonochromatorProtocol
11x-ray100CCDMARMOSAIC 225 mm CCD2013-10-26MSINGLE WAVELENGTH
Radiation Source
ID #SourceTypeWavelength ListSynchrotron SiteBeamline
1SYNCHROTRONBESSY BEAMLINE 14.20.9184BESSY14.2

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
11.6250970.05616.113.672901
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)
11.621.6878.10.3910

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 REPLACEMENTTHROUGHOUT4RKC1.623569085367497.020.12560.12360.1637RANDOM37.709
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]
0.140.070.14-0.46
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg35.463
r_sphericity_free23.041
r_dihedral_angle_4_deg19.209
r_dihedral_angle_3_deg12.883
r_sphericity_bonded12.527
r_dihedral_angle_1_deg5.647
r_rigid_bond_restr3.817
r_angle_refined_deg1.631
r_chiral_restr0.12
r_bond_refined_d0.016
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg35.463
r_sphericity_free23.041
r_dihedral_angle_4_deg19.209
r_dihedral_angle_3_deg12.883
r_sphericity_bonded12.527
r_dihedral_angle_1_deg5.647
r_rigid_bond_restr3.817
r_angle_refined_deg1.631
r_chiral_restr0.12
r_bond_refined_d0.016
r_gen_planes_refined0.009
Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen AtomsNumber
Protein Atoms3101
Nucleic Acid Atoms
Solvent Atoms510
Heterogen Atoms24

Software

Software
Software NamePurpose
REFMACrefinement
HKL-2000data scaling
PDB_EXTRACTdata extraction
HKL-2000data reduction
PHASERphasing