1CF9

Structure of the mutant VAL169CYS of catalase HPII from Escherichia coli


X-RAY DIFFRACTION

Starting Model(s)

Initial Refinement Model(s)
TypeSourceAccession CodeDetails
experimental modelPDB 1IPH 

Crystallization

Crystalization Experiments
IDMethodpHTemperatureDetails
19pH 9
Crystal Properties
Matthews coefficientSolvent content
2.450

Crystal Data

Unit Cell
Length ( Å )Angle ( ˚ )
a = 93.47α = 90
b = 133.04β = 109.64
c = 122.22γ = 90
Symmetry
Space GroupP 1 21 1

Diffraction

Diffraction Experiment
ID #Crystal IDScattering TypeData Collection TemperatureDetectorDetector TypeDetailsCollection DateMonochromatorProtocol
11x-ray1001998-06-15MSINGLE WAVELENGTH
Radiation Source
ID #SourceTypeWavelength ListSynchrotron SiteBeamline
1SYNCHROTRONEMBL/DESY, HAMBURG BEAMLINE X11EMBL/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
11.772088.30.08399.63250445313.6
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)
11.771.7986.70.462.12

Refinement

Statistics
Diffraction IDStructure Solution MethodCross Validation methodStarting modelResolution (High)Resolution (Low)Number Reflections (All)Number Reflections (Observed)Number Reflections (R-Free)Percent Reflections (Observed)R-WorkR-FreeR-Free Selection DetailsMean Isotropic B
X-RAY DIFFRACTIONOTHERTHROUGHOUT1IPH1.82024043724043788.30.18110.237RANDOM13.5
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]
-1.12-2.433.651.11
RMS Deviations
KeyRefinement Restraint Deviation
p_transverse_tor31.5
p_staggered_tor14.9
p_planar_tor4.7
p_multtor_nbd0.254
p_scangle_it0.193
p_singtor_nbd0.179
p_xyhbond_nbd0.176
p_scbond_it0.172
p_mcangle_it0.164
p_chiral_restr0.163
RMS Deviations
KeyRefinement Restraint Deviation
p_transverse_tor31.5
p_staggered_tor14.9
p_planar_tor4.7
p_multtor_nbd0.254
p_scangle_it0.193
p_singtor_nbd0.179
p_xyhbond_nbd0.176
p_scbond_it0.172
p_mcangle_it0.164
p_chiral_restr0.163
p_mcbond_it0.147
p_planar_d0.036
p_angle_d0.033
p_plane_restr0.013
p_bond_d0.0014
p_angle_deg
p_hb_or_metal_coord
p_xhyhbond_nbd
p_orthonormal_tor
p_special_tor
Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen AtomsNumber
Protein Atoms22976
Nucleic Acid Atoms
Solvent Atoms2686
Heterogen Atoms172

Software

Software
Software NamePurpose
CCP4model building
REFMACrefinement
DENZOdata reduction
SCALEPACKdata scaling
CCP4phasing