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GTP cyclohydrolase III from M. jannaschii (MJ0145) complexed with GTP and metal ions
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 8.5 292 17% PEG 4000, 0.2 M sodium acetate, 0.1 M Tris buffer, pH 8.5, VAPOR DIFFUSION, HANGING DROP, temperature 292K
Crystal Properties Matthews coefficient Solvent content 2.44 49.53
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 100.203 α = 90 b = 129.578 β = 90 c = 90.876 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 295 IMAGE PLATE RIGAKU RAXIS IV++ confocal blue 2007-06-11 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 ROTATING ANODE RIGAKU RUH3R 1.5418
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 31.3 94.6 0.083 8.7 3.9 76172 25.7
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 2.07 92.7 0.422 2.9 3.6 7350
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 MAD THROUGHOUT 2 31.31 72282 3845 94.57 0.20829 0.20632 0.2085 0.24431 0.2431 RANDOM 26.675
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] -0.66 2.11 -1.45
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 38.075 r_dihedral_angle_4_deg 23.942 r_dihedral_angle_3_deg 16.032 r_dihedral_angle_1_deg 5.954 r_scangle_it 3.245 r_scbond_it 2.063 r_angle_refined_deg 1.523 r_mcangle_it 1.247 r_angle_other_deg 0.979 r_mcbond_it 0.666
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 38.075 r_dihedral_angle_4_deg 23.942 r_dihedral_angle_3_deg 16.032 r_dihedral_angle_1_deg 5.954 r_scangle_it 3.245 r_scbond_it 2.063 r_angle_refined_deg 1.523 r_mcangle_it 1.247 r_angle_other_deg 0.979 r_mcbond_it 0.666 r_nbd_refined 0.232 r_symmetry_vdw_other 0.212 r_nbd_other 0.196 r_nbtor_refined 0.174 r_xyhbond_nbd_refined 0.156 r_metal_ion_refined 0.151 r_mcbond_other 0.14 r_symmetry_hbond_refined 0.088 r_chiral_restr 0.086 r_nbtor_other 0.086 r_symmetry_vdw_refined 0.082 r_bond_refined_d 0.014 r_gen_planes_refined 0.005 r_bond_other_d 0.001 r_gen_planes_other 0.001 r_xyhbond_nbd_other r_metal_ion_other r_symmetry_hbond_other r_symmetry_metal_ion_refined r_symmetry_metal_ion_other r_rigid_bond_restr r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 8049 Nucleic Acid Atoms Solvent Atoms 193 Heterogen Atoms 140
Software Software Software Name Purpose CrystalClear data collection SOLVE phasing REFMAC refinement CrystalClear data reduction CrystalClear data scaling