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SCO6650, a 6-pyruvoyltetrahydropterin synthase homolog from Streptomyces coelicolor
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 8 295 2 M NaCl, 10% PEG6000, pH 8.0, VAPOR DIFFUSION, HANGING DROP, temperature 295K
Crystal Properties Matthews coefficient Solvent content 2.06 40.19
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 77.4 α = 90 b = 88 β = 90 c = 120.9 γ = 90
Symmetry Space Group P 21 21 21
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 4 2005-04-05 M MAD 2 1 x-ray 100 CCD ADSC QUANTUM 4 2005-04-05 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON NSLS BEAMLINE X26C 0.9777, 0.9600, 0.9787 NSLS X26C 2 SYNCHROTRON NSLS BEAMLINE X26C 0.9771 NSLS X26C
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 1.45 41.34 96 0.12 44 6.5 141171 140447 19.3
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) 1,2 1.45 1.48 72 0.49 2.2 2 7012
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Resolution (High) Resolution (Low) Number Reflections (All) Number Reflections (Observed) Number Reflections (R-Free) Percent Reflections (Observed) R-Factor (All) R-Factor (Observed) R-Work (Depositor) R-Free (Depositor) R-Free (DCC) R-Free Selection Details Mean Isotropic B X-RAY DIFFRACTION MAD THROUGHOUT 1.45 41.34 140447 133425 7022 95.5 0.207 0.207 0.206 0.224 0.2135 RANDOM 20.396
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] 0.37 -0.21 -0.16
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 33.594 r_dihedral_angle_3_deg 12.425 r_dihedral_angle_4_deg 12.333 r_dihedral_angle_1_deg 5.683 r_scangle_it 3.072 r_scbond_it 1.947 r_mcangle_it 1.249 r_angle_refined_deg 1.219 r_mcbond_it 0.706 r_nbtor_refined 0.302
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 33.594 r_dihedral_angle_3_deg 12.425 r_dihedral_angle_4_deg 12.333 r_dihedral_angle_1_deg 5.683 r_scangle_it 3.072 r_scbond_it 1.947 r_mcangle_it 1.249 r_angle_refined_deg 1.219 r_mcbond_it 0.706 r_nbtor_refined 0.302 r_nbd_refined 0.204 r_symmetry_vdw_refined 0.19 r_symmetry_metal_ion_refined 0.164 r_metal_ion_refined 0.145 r_symmetry_hbond_refined 0.108 r_xyhbond_nbd_refined 0.104 r_chiral_restr 0.088 r_bond_refined_d 0.01 r_gen_planes_refined 0.005 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_other r_symmetry_vdw_other r_symmetry_hbond_other r_symmetry_metal_ion_other r_mcbond_other r_rigid_bond_restr r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 6206 Nucleic Acid Atoms Solvent Atoms 677 Heterogen Atoms 5
Software Software Software Name Purpose REFMAC refinement HKL-2000 data reduction SCALEPACK data scaling SOLVE phasing