2IAZ

Crystal structure of a Conserved Protein of Unknown Function SP1372 from Streptococcus pneumoniae


X-RAY DIFFRACTION

Crystallization

Crystalization Experiments
IDMethodpHTemperatureDetails
1VAPOR DIFFUSION, SITTING DROP729860% Tacsimate, pH 7.0, VAPOR DIFFUSION, SITTING DROP, temperature 298K
Crystal Properties
Matthews coefficientSolvent content
2.652.74

Crystal Data

Unit Cell
Length ( Å )Angle ( ˚ )
a = 64.808α = 90
b = 86.715β = 90
c = 93.881γ = 90
Symmetry
Space GroupP 21 21 21

Diffraction

Diffraction Experiment
ID #Crystal IDScattering TypeData Collection TemperatureDetectorDetector TypeDetailsCollection DateMonochromatorProtocol
11x-ray100CCDADSC QUANTUM 315mirrors2005-12-05MSINGLE WAVELENGTH
Radiation Source
ID #SourceTypeWavelength ListSynchrotron SiteBeamline
1SYNCHROTRONAPS BEAMLINE 19-ID0.97980APS19-ID

Data Collection

Overall
ID #Resolution (High)Resolution (Low)Percent Possible (Observed)R Merge 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
12.433.6399.490.08220.22020520102240.6
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)
12.42.46299.480.36634.81480

Refinement

Statistics
Diffraction IDStructure Solution MethodCross Validation methodResolution (High)Resolution (Low)Number Reflections (All)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 DIFFRACTIONSADTHROUGHOUT2.433.632010220102108899.490.231880.231880.228720.28902RANDOM40.591
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]
-1.972.83-0.86
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg39.622
r_dihedral_angle_4_deg24.326
r_dihedral_angle_3_deg19.616
r_dihedral_angle_1_deg5.935
r_scangle_it3.212
r_scbond_it2.2
r_angle_refined_deg1.646
r_mcangle_it1.36
r_mcbond_it1.183
r_angle_other_deg1.027
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg39.622
r_dihedral_angle_4_deg24.326
r_dihedral_angle_3_deg19.616
r_dihedral_angle_1_deg5.935
r_scangle_it3.212
r_scbond_it2.2
r_angle_refined_deg1.646
r_mcangle_it1.36
r_mcbond_it1.183
r_angle_other_deg1.027
r_symmetry_vdw_refined0.363
r_symmetry_vdw_other0.303
r_nbd_refined0.23
r_xyhbond_nbd_refined0.202
r_mcbond_other0.188
r_nbtor_refined0.184
r_nbd_other0.181
r_nbtor_other0.095
r_chiral_restr0.086
r_symmetry_hbond_refined0.065
r_bond_refined_d0.019
r_gen_planes_refined0.005
r_bond_other_d0.001
r_gen_planes_other0.001
Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen AtomsNumber
Protein Atoms3438
Nucleic Acid Atoms
Solvent Atoms105
Heterogen Atoms

Software

Software
Software NamePurpose
REFMACrefinement
SBC-Collectdata collection
HKL-2000data reduction
HKL-2000data scaling
HKL-3000phasing
SHELXEmodel building
SOLVEphasing
RESOLVEphasing
ARP/wARPmodel building