3EU5

Crystal structure of FTase(ALPHA-subunit; BETA-subunit DELTA C10) in complex with BiotinGPP


X-RAY DIFFRACTION

Starting Model(s)

Initial Refinement Model(s)
TypeSourceAccession CodeDetails
experimental modelPDB 1FT1PDB ENTRY 1FT1

Crystallization

Crystalization Experiments
IDMethodpHTemperatureDetails
1VAPOR DIFFUSION, HANGING DROP7.529220% (w/v) PEG 4000, 0.2M MgCl2, 0.1M Tris, pH 7.5, VAPOR DIFFUSION, HANGING DROP, temperature 292K
Crystal Properties
Matthews coefficientSolvent content
3.463.84

Crystal Data

Unit Cell
Length ( Å )Angle ( ˚ )
a = 175.065α = 90
b = 175.065β = 90
c = 70.618γ = 120
Symmetry
Space GroupP 61

Diffraction

Diffraction Experiment
ID #Crystal IDScattering TypeData Collection TemperatureDetectorDetector TypeDetailsCollection DateMonochromatorProtocol
11x-ray100CCDMARMOSAIC 225 mm CCD2008-05-25MSINGLE WAVELENGTH
Radiation Source
ID #SourceTypeWavelength ListSynchrotron SiteBeamline
1SYNCHROTRONSLS BEAMLINE X10SA1.0007SLSX10SA

Data Collection

Overall
ID #Resolution (High)Resolution (Low)Percent Possible (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
12.83099.70.06920.57.63069330615553
Highest Resolution Shell
ID #Resolution (High)Resolution (Low)Percent Possible (All)Percent Possible (Observed)R-Sym I (Observed)Mean I Over Sigma (Observed)RedundancyNumber Unique Reflections (All)
2.82.999.80.3355.97.630615

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 REPLACEMENTTHROUGHOUTPDB ENTRY 1FT12.829.9629048154499.770.15530.152580.20692RANDOM52.562
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]
0.750.370.75-1.12
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg37.424
r_dihedral_angle_4_deg21.551
r_dihedral_angle_3_deg18.569
r_dihedral_angle_1_deg6.797
r_scangle_it4.999
r_angle_other_deg3.623
r_mcbond_other3.61
r_scbond_it3.171
r_mcangle_it2.602
r_angle_refined_deg1.784
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg37.424
r_dihedral_angle_4_deg21.551
r_dihedral_angle_3_deg18.569
r_dihedral_angle_1_deg6.797
r_scangle_it4.999
r_angle_other_deg3.623
r_mcbond_other3.61
r_scbond_it3.171
r_mcangle_it2.602
r_angle_refined_deg1.784
r_mcbond_it1.515
r_symmetry_hbond_refined0.522
r_symmetry_vdw_other0.312
r_nbd_other0.239
r_nbd_refined0.236
r_symmetry_vdw_refined0.236
r_nbtor_refined0.2
r_xyhbond_nbd_refined0.159
r_nbtor_other0.112
r_chiral_restr0.089
r_bond_refined_d0.019
r_metal_ion_refined0.009
r_gen_planes_other0.008
r_gen_planes_refined0.006
r_bond_other_d
Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen AtomsNumber
Protein Atoms5842
Nucleic Acid Atoms
Solvent Atoms132
Heterogen Atoms36

Software

Software
Software NamePurpose
PHASERphasing
REFMACrefinement
XDSdata reduction
XSCALEdata scaling