2I9I

Crystal Structure of Helicobacter pylori protein HP0492


X-RAY DIFFRACTION

Crystallization

Crystalization Experiments
IDMethodpHTemperatureDetails
1VAPOR DIFFUSION, SITTING DROP4.629430% PEG 8K, 200mM Na Acetate pH 4.6, 100mM Na Cacodylate pH 6.5, VAPOR DIFFUSION, SITTING DROP, temperature 294K
Crystal Properties
Matthews coefficientSolvent content
2.3247.08

Crystal Data

Unit Cell
Length ( Å )Angle ( ˚ )
a = 52.544α = 90
b = 82.803β = 90
c = 126.236γ = 90
Symmetry
Space GroupC 2 2 21

Diffraction

Diffraction Experiment
ID #Crystal IDScattering TypeData Collection TemperatureDetectorDetector TypeDetailsCollection DateMonochromatorProtocol
11x-ray77CCDMAR CCD 165 mm2006-08-17MSINGLE WAVELENGTH
Radiation Source
ID #SourceTypeWavelength ListSynchrotron SiteBeamline
1SYNCHROTRONAPS BEAMLINE 31-ID0.97958APS31-ID

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
11.82099.90.2250.2089.613.1259292592918
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)
11.81.999.90.8950.8312.113.53733

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 DIFFRACTIONSADTHROUGHOUT1.8202454924500131499.80.20590.20590.203640.24926RANDOM23.075
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]
0.621.75-2.37
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg38.285
r_dihedral_angle_4_deg19.696
r_dihedral_angle_3_deg13.57
r_dihedral_angle_1_deg6.108
r_scangle_it5.004
r_scbond_it3.198
r_mcangle_it1.793
r_angle_refined_deg1.648
r_mcbond_it1.164
r_nbtor_refined0.302
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg38.285
r_dihedral_angle_4_deg19.696
r_dihedral_angle_3_deg13.57
r_dihedral_angle_1_deg6.108
r_scangle_it5.004
r_scbond_it3.198
r_mcangle_it1.793
r_angle_refined_deg1.648
r_mcbond_it1.164
r_nbtor_refined0.302
r_nbd_refined0.207
r_symmetry_hbond_refined0.207
r_symmetry_vdw_refined0.197
r_xyhbond_nbd_refined0.19
r_chiral_restr0.125
r_bond_refined_d0.018
r_gen_planes_refined0.008
Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen AtomsNumber
Protein Atoms1809
Nucleic Acid Atoms
Solvent Atoms156
Heterogen Atoms

Software

Software
Software NamePurpose
REFMACrefinement
MAR345data collection
MOSFLMdata reduction
CCP4data scaling
SnBphasing