2V78

Crystal structure of Sulfolobus solfataricus 2-keto-3-deoxygluconate kinase


X-RAY DIFFRACTION

Crystallization

Crystal Properties
Matthews coefficientSolvent content
2.9658.09

Crystal Data

Unit Cell
Length ( Å )Angle ( ˚ )
a = 104.865α = 90
b = 104.865β = 90
c = 422.502γ = 120
Symmetry
Space GroupP 65 2 2

Diffraction

Diffraction Experiment
ID #Crystal IDScattering TypeData Collection TemperatureDetectorDetector TypeDetailsCollection DateMonochromatorProtocol
11x-ray100CCDADSC CCDMSINGLE WAVELENGTH
Radiation Source
ID #SourceTypeWavelength ListSynchrotron SiteBeamline
1SYNCHROTRONESRF BEAMLINE ID14-1ESRFID14-1

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
1276.3970.0626.812.8912057.2
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)
122.1181.40.217.23.9

Refinement

Statistics
Diffraction IDStructure Solution MethodCross Validation methodResolution (High)Resolution (Low)Number Reflections (Observed)Number Reflections (R-Free)Percent Reflections (Observed)R-Factor (Observed)R-WorkR-FreeR-Free Selection DetailsMean Isotropic B
X-RAY DIFFRACTIONMOLECULAR REPLACEMENTTHROUGHOUT246.9886496455496.90.1640.1620.198RANDOM21.38
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]
0.01
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg34.022
r_dihedral_angle_4_deg15.95
r_dihedral_angle_3_deg15.572
r_dihedral_angle_1_deg6.089
r_scangle_it4.436
r_scbond_it3.035
r_angle_refined_deg1.799
r_mcangle_it1.725
r_mcbond_it1.146
r_nbtor_refined0.316
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg34.022
r_dihedral_angle_4_deg15.95
r_dihedral_angle_3_deg15.572
r_dihedral_angle_1_deg6.089
r_scangle_it4.436
r_scbond_it3.035
r_angle_refined_deg1.799
r_mcangle_it1.725
r_mcbond_it1.146
r_nbtor_refined0.316
r_symmetry_vdw_refined0.26
r_nbd_refined0.211
r_symmetry_hbond_refined0.185
r_xyhbond_nbd_refined0.173
r_chiral_restr0.139
r_bond_refined_d0.02
r_gen_planes_refined0.008
r_bond_other_d
r_angle_other_deg
r_gen_planes_other
r_nbd_other
r_nbtor_other
r_xyhbond_nbd_other
r_metal_ion_refined
r_metal_ion_other
r_symmetry_vdw_other
r_symmetry_hbond_other
r_symmetry_metal_ion_refined
r_symmetry_metal_ion_other
r_mcbond_other
r_mcangle_other
r_scbond_other
r_scangle_other
r_long_range_B_refined
r_long_range_B_other
r_rigid_bond_restr
r_sphericity_free
r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen AtomsNumber
Protein Atoms7335
Nucleic Acid Atoms
Solvent Atoms462
Heterogen Atoms

Software

Software
Software NamePurpose
REFMACrefinement