5YNV

Crystal structure of an aromatic prenyltransferase FAMD1 from Fischerella ambigua UTEX 1903 in complex with DMASPP


X-RAY DIFFRACTION

Crystallization

Crystalization Experiments
IDMethodpHTemperatureDetails
1VAPOR DIFFUSION, SITTING DROP82951.0 M sodium citrate, 0.1 M Imidazole pH 8.0
Crystal Properties
Matthews coefficientSolvent content
2.8156.26

Crystal Data

Unit Cell
Length ( Å )Angle ( ˚ )
a = 93.917α = 90
b = 211.42β = 90
c = 82.52γ = 90
Symmetry
Space GroupC 2 2 21

Diffraction

Diffraction Experiment
ID #Crystal IDScattering TypeData Collection TemperatureDetectorDetector TypeDetailsCollection DateMonochromatorProtocol
11x-ray100CCDRAYONIX MX-3002017-09-08MSINGLE WAVELENGTH
Radiation Source
ID #SourceTypeWavelength ListSynchrotron SiteBeamline
1SYNCHROTRONNSRRC BEAMLINE BL15A11.0NSRRCBL15A1

Data Collection

Overall
ID #Resolution (High)Resolution (Low)Percent Possible (Observed)R Merge I (Observed)Rrim I (All)Rpim I (All)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
11.75099.90.0520.0580.02715.34.990773
Highest Resolution Shell
ID #Resolution (High)Resolution (Low)Percent Possible (All)Percent Possible (Observed)R Merge I (Observed)Rrim I (All)Rpim I (All)CC (Half)Mean I Over Sigma (Observed)RedundancyNumber Unique Reflections (All)
11.71.7699.70.3360.3780.1720.9244.8

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 DIFFRACTIONSIRASTHROUGHOUT1.72585679467099.940.11770.11480.1709RANDOM26.238
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]
0.81-0.51-0.31
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg35.982
r_sphericity_free30.101
r_sphericity_bonded21.872
r_dihedral_angle_4_deg17.104
r_dihedral_angle_3_deg14.987
r_rigid_bond_restr8.708
r_dihedral_angle_1_deg6.736
r_angle_refined_deg1.45
r_chiral_restr0.121
r_gen_planes_refined0.018
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg35.982
r_sphericity_free30.101
r_sphericity_bonded21.872
r_dihedral_angle_4_deg17.104
r_dihedral_angle_3_deg14.987
r_rigid_bond_restr8.708
r_dihedral_angle_1_deg6.736
r_angle_refined_deg1.45
r_chiral_restr0.121
r_gen_planes_refined0.018
r_bond_refined_d0.014
Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen AtomsNumber
Protein Atoms4901
Nucleic Acid Atoms
Solvent Atoms747
Heterogen Atoms34

Software

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