8FVB

E coli. CTP synthase in complex with CTP


X-RAY DIFFRACTION

Starting Model(s)

Initial Refinement Model(s)
TypeSourceAccession CodeDetails
experimental modelOther5TKV 
experimental modelPDB 5TKV 

Crystallization

Crystalization Experiments
IDMethodpHTemperatureDetails
1VAPOR DIFFUSION, HANGING DROP82770.1 M TRIS-Cl pH 8.0 (room temperature), 5 mM magnesium chloride, 1.15 - 1.4 M ammonium sulfate, 15 mg/mL CTPS.
Crystal Properties
Matthews coefficientSolvent content
4.5472.94

Crystal Data

Unit Cell
Length ( Å )Angle ( ˚ )
a = 164.707α = 90
b = 103.907β = 90
c = 131.835γ = 90
Symmetry
Space GroupP 21 21 2

Diffraction

Diffraction Experiment
ID #Crystal IDScattering TypeData Collection TemperatureDetectorDetector TypeDetailsCollection DateMonochromatorProtocol
11x-ray100CCDRAYONIX MX-3002019-05-09MSINGLE WAVELENGTH
Radiation Source
ID #SourceTypeWavelength ListSynchrotron SiteBeamline
1SYNCHROTRONCLSI BEAMLINE 08B1-10.978CLSI08B1-1

Data Collection

Overall
ID #Resolution (High)Resolution (Low)Percent Possible (Observed)R Merge I (Observed)Rrim I (All)Rpim I (All)CC (Half)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
12.034497.30.1660.1720.0450.974.831414212733.4
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)
12.032.173.40.8510.8870.2480.8921.1512.1

Refinement

Statistics
Diffraction IDStructure Solution MethodCross Validation methodStarting modelResolution (High)Resolution (Low)Number Reflections (Observed)Number Reflections (R-Free)Percent Reflections (Observed)R-Factor (All)R-WorkR-FreeMean Isotropic B
X-RAY DIFFRACTIONMOLECULAR REPLACEMENTFREE R-VALUE5TKV2.0344142127716297.3540.1930.19230.214435.822
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]
0.003-0.003
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg33.327
r_dihedral_angle_4_deg12.36
r_dihedral_angle_3_deg11.859
r_dihedral_angle_1_deg5.578
r_lrange_it4.383
r_lrange_other4.092
r_mcangle_it1.857
r_mcangle_other1.856
r_scangle_it1.615
r_scangle_other1.614
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg33.327
r_dihedral_angle_4_deg12.36
r_dihedral_angle_3_deg11.859
r_dihedral_angle_1_deg5.578
r_lrange_it4.383
r_lrange_other4.092
r_mcangle_it1.857
r_mcangle_other1.856
r_scangle_it1.615
r_scangle_other1.614
r_angle_refined_deg1.158
r_angle_other_deg1.092
r_mcbond_it1.037
r_mcbond_other1.037
r_scbond_it0.916
r_scbond_other0.916
r_symmetry_nbd_refined0.173
r_nbd_other0.168
r_nbd_refined0.165
r_symmetry_nbd_other0.16
r_nbtor_refined0.141
r_xyhbond_nbd_refined0.118
r_symmetry_xyhbond_nbd_refined0.098
r_symmetry_nbtor_other0.071
r_chiral_restr0.044
r_gen_planes_refined0.003
r_bond_refined_d0.002
r_bond_other_d0.001
r_gen_planes_other0.001
Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen AtomsNumber
Protein Atoms8326
Nucleic Acid Atoms
Solvent Atoms847
Heterogen Atoms86

Software

Software
Software NamePurpose
REFMACrefinement
HKL-2000data reduction
HKL-2000data scaling
MOLREPphasing