2JCB

The crystal structure of 5-formyl-tetrahydrofolate cycloligase from Bacillus anthracis (BA4489)


X-RAY DIFFRACTION

Crystallization

Crystalization Experiments
IDMethodpHTemperatureDetails
15.53.8MM FOLINATE, 3.8MM ATP, 30MM MAGNESIUM CHLORIDE, 25% POLYETHYLENE GLYCOL 3350, 100 MM BIS-TRIS (PH 5.5)
Crystal Properties
Matthews coefficientSolvent content
2.1944

Crystal Data

Unit Cell
Length ( Å )Angle ( ˚ )
a = 37.152α = 74.92
b = 45.499β = 78.01
c = 66.999γ = 70.14
Symmetry
Space GroupP 1

Diffraction

Diffraction Experiment
ID #Crystal IDScattering TypeData Collection TemperatureDetectorDetector TypeDetailsCollection DateMonochromatorProtocol
11x-ray100CCDADSC CCD2004-09-05MSINGLE WAVELENGTH
Radiation Source
ID #SourceTypeWavelength ListSynchrotron SiteBeamline
1SYNCHROTRONESRF BEAMLINE ID14-1ESRFID14-1

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
11.62095.50.0413.12.549797
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)
11.61.6994.30.342.92

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 1YDM1.618.694729724911000.1920.1890.238RANDOM33.68
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]
0.01-0.01
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg34.81
r_dihedral_angle_4_deg18.805
r_dihedral_angle_3_deg15.423
r_dihedral_angle_1_deg5.89
r_scangle_it3.56
r_scbond_it2.467
r_angle_refined_deg1.628
r_mcangle_it1.569
r_mcbond_it1.092
r_nbtor_refined0.301
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg34.81
r_dihedral_angle_4_deg18.805
r_dihedral_angle_3_deg15.423
r_dihedral_angle_1_deg5.89
r_scangle_it3.56
r_scbond_it2.467
r_angle_refined_deg1.628
r_mcangle_it1.569
r_mcbond_it1.092
r_nbtor_refined0.301
r_nbd_refined0.211
r_symmetry_vdw_refined0.178
r_xyhbond_nbd_refined0.156
r_symmetry_hbond_refined0.155
r_chiral_restr0.108
r_bond_refined_d0.016
r_gen_planes_refined0.007
r_bond_other_d
r_angle_other_deg
r_gen_planes_other
r_nbd_other
r_nbtor_other
r_xyhbond_nbd_other
r_metal_ion_refined
r_metal_ion_other
r_symmetry_vdw_other
r_symmetry_hbond_other
r_symmetry_metal_ion_refined
r_symmetry_metal_ion_other
r_mcbond_other
r_mcangle_other
r_scbond_other
r_scangle_other
r_long_range_B_refined
r_long_range_B_other
r_rigid_bond_restr
r_sphericity_free
r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen AtomsNumber
Protein Atoms3168
Nucleic Acid Atoms
Solvent Atoms324
Heterogen Atoms66

Software

Software
Software NamePurpose
REFMACrefinement
XDSdata reduction
XDSdata scaling
MOLREPphasing