4GHO

Crystal Structure Analysis of Streptomyces aureofaciens Ribonuclease S24A mutant


X-RAY DIFFRACTION

Starting Model(s)

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

Crystallization

Crystalization Experiments
IDMethodpHTemperatureDetails
1VAPOR DIFFUSION, HANGING DROP7.22980.7M ammonium sulfate, phosphate buffer, pH 7.2, VAPOR DIFFUSION, HANGING DROP, temperature 298, temperature 298.0K
Crystal Properties
Matthews coefficientSolvent content
2.3347.24

Crystal Data

Unit Cell
Length ( Å )Angle ( ˚ )
a = 38.918α = 90
b = 64.693β = 90
c = 78.281γ = 90
Symmetry
Space GroupP 21 21 21

Diffraction

Diffraction Experiment
ID #Crystal IDScattering TypeData Collection TemperatureDetectorDetector TypeDetailsCollection DateMonochromatorProtocol
11x-ray298IMAGE PLATEMAR scanner 345 mm platemirrors1998-06-13MSINGLE WAVELENGTH
Radiation Source
ID #SourceTypeWavelength ListSynchrotron SiteBeamline
1SYNCHROTRONEMBL/DESY, HAMBURG BEAMLINE BW7B0.834EMBL/DESY, HAMBURGBW7B

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
11.12098.29969380959
Highest Resolution Shell
ID #Resolution (High)Resolution (Low)Percent Possible (All)Percent Possible (Observed)Mean I Over Sigma (Observed)RedundancyNumber Unique Reflections (All)
11.11.1196.73.32619

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-Factor (Observed)R-WorkR-FreeR-Free Selection DetailsMean Isotropic B
X-RAY DIFFRACTIONMOLECULAR REPLACEMENTTHROUGHOUT1RGG1.114.529969380959399198.240.097930.096940.11701RANDOM14.53
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]
-0.02-0.010.03
RMS Deviations
KeyRefinement Restraint Deviation
r_sphericity_free36.12
r_dihedral_angle_2_deg29.773
r_dihedral_angle_4_deg23.021
r_sphericity_bonded12.557
r_dihedral_angle_3_deg11.622
r_rigid_bond_restr7.7
r_dihedral_angle_1_deg6.354
r_angle_refined_deg2.14
r_angle_other_deg1.659
r_chiral_restr0.362
RMS Deviations
KeyRefinement Restraint Deviation
r_sphericity_free36.12
r_dihedral_angle_2_deg29.773
r_dihedral_angle_4_deg23.021
r_sphericity_bonded12.557
r_dihedral_angle_3_deg11.622
r_rigid_bond_restr7.7
r_dihedral_angle_1_deg6.354
r_angle_refined_deg2.14
r_angle_other_deg1.659
r_chiral_restr0.362
o_bond_d0.028
r_gen_planes_refined0.011
r_bond_other_d0.002
r_gen_planes_other0.001
Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen AtomsNumber
Protein Atoms1482
Nucleic Acid Atoms
Solvent Atoms341
Heterogen Atoms5

Software

Software
Software NamePurpose
HKL-2000data collection
AMoREphasing
REFMACrefinement
DENZOdata reduction
SCALEPACKdata scaling