1AR5

X-RAY STRUCTURE OF THE CAMBIALISTIC SUPEROXIDE DISMUTASE FROM PROPIONIBACTERIUM SHERMANII ACTIVE WITH FE OR MN


X-RAY DIFFRACTION

Crystallization

Crystalization Experiments
IDMethodpHTemperatureDetails
1microseeding6.15277PROTEIN WAS CRYSTALLIZED FROM 2.15 M (NH4)2SO4, 50 MM KPI, PH 6.15 AT 4 DEG C. NUCLEATION WAS INDUCED BY ADDING A MICROSEED FROM CRYSTALS GROWN FROM 2.4 M (NH4)2SO4, 50MM KPI, PH 7.4 AT 4 DEG C., microseeding, temperature 277K
Crystal Properties
Matthews coefficientSolvent content
2.0432.2

Crystal Data

Unit Cell
Length ( Å )Angle ( ˚ )
a = 79.83α = 90
b = 85.687β = 90
c = 108.59γ = 90
Symmetry
Space GroupC 2 2 21

Diffraction

Diffraction Experiment
ID #Crystal IDScattering TypeData Collection TemperatureDetectorDetector TypeDetailsCollection DateMonochromatorProtocol
11x-ray295AREA DETECTORSIEMENS1995-11-26M
Radiation Source
ID #SourceTypeWavelength ListSynchrotron SiteBeamline
1ROTATING ANODEENRAF-NONIUS FR591

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
11.639.896.50.0270.02722.73.947484215.01
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)
1.61.6690.20.1360.13672.3

Refinement

Statistics
Diffraction IDStructure Solution MethodCross Validation methodStarting modelResolution (High)Resolution (Low)Cut-off Sigma (F)Number Reflections (Observed)Number Reflections (R-Free)Percent Reflections (Observed)R-Factor (Observed)R-WorkR-FreeR-Free Selection DetailsMean Isotropic B
X-RAY DIFFRACTIONMR/MIRTHROUGHOUTFE-SOD E.COLI, MN-SOD T.THERMOPHILUS1.6104.544130445189.790.1630.1630.184RANDOM16.83
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]
RMS Deviations
KeyRefinement Restraint Deviation
x_dihedral_angle_d21
x_scangle_it2.5
x_mcangle_it2
x_scbond_it2
x_mcbond_it1.5
x_angle_deg1.291
x_improper_angle_d0.913
x_bond_d0.005
x_bond_d_na
x_bond_d_prot
RMS Deviations
KeyRefinement Restraint Deviation
x_dihedral_angle_d21
x_scangle_it2.5
x_mcangle_it2
x_scbond_it2
x_mcbond_it1.5
x_angle_deg1.291
x_improper_angle_d0.913
x_bond_d0.005
x_bond_d_na
x_bond_d_prot
x_angle_d
x_angle_d_na
x_angle_d_prot
x_angle_deg_na
x_angle_deg_prot
x_dihedral_angle_d_na
x_dihedral_angle_d_prot
x_improper_angle_d_na
x_improper_angle_d_prot
Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen AtomsNumber
Protein Atoms3210
Nucleic Acid Atoms
Solvent Atoms451
Heterogen Atoms2

Software

Software
Software NamePurpose
X-PLORmodel building
X-PLORrefinement
SAINTdata reduction
Agrovatadata scaling
TRUNCATEdata scaling
X-PLORphasing