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Crystal Structure of Isopentenyl Phosphate Kinase from M. jannaschii in complex with IPP
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 298 crystals were grown in 1.6M ammonium sulfate and
then transferred to a solution containing 1.6M ammonium sulfate, 10mM IPP, vapor diffusion, hanging drop, temperature 298K, VAPOR DIFFUSION, HANGING DROP
Crystal Properties Matthews coefficient Solvent content 2.79 55.93
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 78.09 α = 90 b = 99.23 β = 90 c = 87.41 γ = 90
Symmetry Space Group P 21 21 2
Diffraction Diffraction Experiment ID # Crystal ID Scattering Type Data Collection Temperature Detector Detector Type Details Collection Date Monochromator Protocol 1 1 x-ray 100 CCD ADSC QUANTUM 315 2008-08-27 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON ALS BEAMLINE 8.2.2 1.0 ALS 8.2.2
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge I (Observed) Net I Over Average Sigma (I) Redundancy Number Reflections (All) Number Reflections (Observed) Observed Criterion Sigma (F) Observed Criterion Sigma (I) B (Isotropic) From Wilson Plot 1 2.54 50 98.6 0.077 16.32 5.87 22954 22723 -3 47.429
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R Merge I (Observed) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 2.54 2.64 89.8 0.489 3.5 5.66 3643
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Resolution (High) Resolution (Low) Number Reflections (Observed) Number Reflections (R-Free) Percent Reflections (Observed) R-Factor (Observed) R-Work (Depositor) R-Work (DCC) R-Free (Depositor) R-Free (DCC) R-Free Selection Details Mean Isotropic B X-RAY DIFFRACTION CNS rigid body THROUGHOUT 2.54 43.71 22723 1145 98.99 0.227 0.224 0.2285 0.287 0.2302 RANDOM 42.056
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] 0.55 1.44 -1.98
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 32.697 r_dihedral_angle_3_deg 13.728 r_dihedral_angle_4_deg 12.749 r_dihedral_angle_1_deg 4.631 r_scangle_it 1.333 r_mcangle_it 0.828 r_angle_refined_deg 0.784 r_scbond_it 0.771 r_mcbond_it 0.448 r_chiral_restr 0.054
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 32.697 r_dihedral_angle_3_deg 13.728 r_dihedral_angle_4_deg 12.749 r_dihedral_angle_1_deg 4.631 r_scangle_it 1.333 r_mcangle_it 0.828 r_angle_refined_deg 0.784 r_scbond_it 0.771 r_mcbond_it 0.448 r_chiral_restr 0.054 r_bond_refined_d 0.005 r_gen_planes_refined 0.003
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 4074 Nucleic Acid Atoms Solvent Atoms 96 Heterogen Atoms 48
Software Software Software Name Purpose XSCALE data scaling REFMAC refinement PDB_EXTRACT data extraction BOS data collection XDS data reduction CNS phasing