X-RAY DIFFRACTION

Starting Model(s)

Initial Refinement Model(s)
TypeSourceAccession CodeDetails
experimental modelPDB 1PD5Isomorphous structure of the apoenzyme form of CAT I pdbID 1PD5

Crystallization

Crystalization Experiments
IDMethodpHTemperatureDetails
1VAPOR DIFFUSION, HANGING DROP5.8290methanol,calcium chloride,mes,sodium fusidate, pH 5.8, VAPOR DIFFUSION, HANGING DROP, temperature 290.0K
Crystal Properties
Matthews coefficientSolvent content
2.7154.59

Crystal Data

Unit Cell
Length ( Å )Angle ( ˚ )
a = 115.354α = 90
b = 129.198β = 108.3
c = 118.073γ = 90
Symmetry
Space GroupP 1 21 1

Diffraction

Diffraction Experiment
ID #Crystal IDScattering TypeData Collection TemperatureDetectorDetector TypeDetailsCollection DateMonochromatorProtocol
11x-ray100CCDMARRESEARCHBENT MIRROR2002-09-28MSINGLE WAVELENGTH
Radiation Source
ID #SourceTypeWavelength ListSynchrotron SiteBeamline
1SYNCHROTRONEMBL/DESY, HAMBURG BEAMLINE X110.811EMBL/DESY, HAMBURGX11

Data Collection

Overall
ID #Resolution (High)Resolution (Low)Percent Possible (Observed)R Merge I (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
12.186.797.90.0590.0599.83.51821151821152232.34
Highest Resolution Shell
ID #Resolution (High)Resolution (Low)Percent Possible (All)Percent Possible (Observed)R Merge I (Observed)R-Sym I (Observed)Mean I Over Sigma (Observed)RedundancyNumber Unique Reflections (All)
2.182.2399.40.2860.2343.63.325486

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 REPLACEMENTTHROUGHOUTIsomorphous structure of the apoenzyme form of CAT I pdbID 1PD52.18111.8161964860399.740.195120.19150.26324RANDOM33.344
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]
5.282.04-2.11-1.89
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_1_deg8.022
r_scangle_it5.714
r_scbond_it4.125
r_angle_refined_deg2.963
r_mcangle_it2.542
r_mcbond_it1.495
r_chiral_restr0.364
r_nbd_refined0.254
r_symmetry_vdw_refined0.221
r_symmetry_hbond_refined0.188
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_1_deg8.022
r_scangle_it5.714
r_scbond_it4.125
r_angle_refined_deg2.963
r_mcangle_it2.542
r_mcbond_it1.495
r_chiral_restr0.364
r_nbd_refined0.254
r_symmetry_vdw_refined0.221
r_symmetry_hbond_refined0.188
r_xyhbond_nbd_refined0.185
r_bond_refined_d0.036
r_gen_planes_refined0.01
Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen AtomsNumber
Protein Atoms21253
Nucleic Acid Atoms
Solvent Atoms582
Heterogen Atoms445

Software

Software
Software NamePurpose
REFMACrefinement
MOSFLMdata reduction
CCP4data scaling
AMoREphasing