2BE9

Crystal structure of the CTP-liganded (T-State) aspartate transcarbamoylase from the extremely thermophilic archaeon Sulfolobus acidocaldarius


X-RAY DIFFRACTION

Starting Model(s)

Initial Refinement Model(s)
TypeSourceAccession CodeDetails
experimental modelPDB 1PG5PDB Entry: 1PG5

Crystallization

Crystalization Experiments
IDMethodpHTemperatureDetails
1VAPOR DIFFUSION, HANGING DROP4298AMMONIUM SULFATE, SODIUM ACETATE CTP soak, pH 4, VAPOR DIFFUSION, HANGING DROP, temperature 298K
Crystal Properties
Matthews coefficientSolvent content
3.2962.56

Crystal Data

Unit Cell
Length ( Å )Angle ( ˚ )
a = 131.932α = 90
b = 131.932β = 90
c = 139.132γ = 120
Symmetry
Space GroupP 63 2 2

Diffraction

Diffraction Experiment
ID #Crystal IDScattering TypeData Collection TemperatureDetectorDetector TypeDetailsCollection DateMonochromatorProtocol
11x-ray100CCDMARRESEARCH2005-02-02MSINGLE WAVELENGTH
Radiation Source
ID #SourceTypeWavelength ListSynchrotron SiteBeamline
1SYNCHROTRONEMBL/DESY, HAMBURG BEAMLINE X130.8034EMBL/DESY, HAMBURGX13

Data Collection

Overall
ID #Resolution (High)Resolution (Low)Percent Possible (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
12.55098.22487524875
Highest Resolution Shell
ID #Resolution (High)Resolution (Low)Percent Possible (All)Percent Possible (Observed)Mean I Over Sigma (Observed)RedundancyNumber Unique Reflections (All)
12.52.5696.6

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-Factor (Observed)R-WorkR-FreeR-Free Selection DetailsMean Isotropic B
X-RAY DIFFRACTIONMOLECULAR REPLACEMENTTHROUGHOUTPDB Entry: 1PG52.62020963112398.090.225010.225010.222570.27133RANDOM46.349
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]
0.850.420.85-1.27
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg38.288
r_dihedral_angle_4_deg21.958
r_dihedral_angle_3_deg19.495
r_dihedral_angle_1_deg6.353
r_scangle_it2.21
r_angle_refined_deg1.44
r_scbond_it1.417
r_mcangle_it1.081
r_mcbond_it0.619
r_nbtor_refined0.312
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg38.288
r_dihedral_angle_4_deg21.958
r_dihedral_angle_3_deg19.495
r_dihedral_angle_1_deg6.353
r_scangle_it2.21
r_angle_refined_deg1.44
r_scbond_it1.417
r_mcangle_it1.081
r_mcbond_it0.619
r_nbtor_refined0.312
r_symmetry_hbond_refined0.256
r_nbd_refined0.208
r_symmetry_vdw_refined0.194
r_xyhbond_nbd_refined0.15
r_chiral_restr0.088
r_bond_refined_d0.011
r_gen_planes_refined0.004
Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen AtomsNumber
Protein Atoms3494
Nucleic Acid Atoms
Solvent Atoms77
Heterogen Atoms35

Software

Software
Software NamePurpose
REFMACrefinement
DENZOdata reduction
SCALEPACKdata scaling
AMoREphasing