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Thermus thermophilus Uroporphyrinogen III Synthase
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 8.5 277 PEG 8000, MgCl2, Tris-HCl, pH 8.5, VAPOR DIFFUSION, SITTING DROP, temperature 277K
Crystal Properties Matthews coefficient Solvent content 2.15 42.72
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 40.75 α = 90 b = 89.957 β = 101.32 c = 74.981 γ = 90
Symmetry Space Group P 1 21 1
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 2005-10-27 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON NSLS BEAMLINE X25 1.0 NSLS X25
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Sym 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 1.6 50 0.041 30.3 58034
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R-Sym I (Observed) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1.6 1.66 0.351 2.2
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 THROUGHOUT 1.6 34.03 48973 3324 94.1 0.192 0.19 0.2025 0.236 0.2 RANDOM 23.99
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] 0.68 0.05 -0.5 -0.17
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 26.283 r_dihedral_angle_4_deg 18.393 r_dihedral_angle_3_deg 13.634 r_sphericity_bonded 8.975 r_sphericity_free 6.14 r_dihedral_angle_1_deg 5.159 r_scangle_it 4.552 r_scbond_it 3.051 r_mcangle_it 2.258 r_rigid_bond_restr 1.753
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 26.283 r_dihedral_angle_4_deg 18.393 r_dihedral_angle_3_deg 13.634 r_sphericity_bonded 8.975 r_sphericity_free 6.14 r_dihedral_angle_1_deg 5.159 r_scangle_it 4.552 r_scbond_it 3.051 r_mcangle_it 2.258 r_rigid_bond_restr 1.753 r_mcbond_it 1.483 r_angle_refined_deg 1.409 r_nbtor_refined 0.31 r_symmetry_hbond_refined 0.222 r_nbd_refined 0.219 r_xyhbond_nbd_refined 0.2 r_symmetry_vdw_refined 0.143 r_chiral_restr 0.097 r_bond_refined_d 0.014 r_gen_planes_refined 0.006 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
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 4066 Nucleic Acid Atoms Solvent Atoms 598 Heterogen Atoms 16
Software Software Software Name Purpose REFMAC refinement PDB_EXTRACT data extraction ADSC data collection HKL-2000 data reduction HKL-2000 data scaling PHASER phasing