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Structure of Phycoerythrobilin Synthase PebS from the Cyanophage P-SSM2 in the substrate free form
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 8.5 SITTING DROP VAPOUR DIFFUSION PROTEIN:RESERVOIR 1:1 PROTEIN: 10.5MG/ML PROTEIN, 0.025MM TES/KOH PH 8.0 RESERVOIR: 17% PEG4000, 8.5% ISOPROPANOL, 15% GLYCEROL, 0.085M HEPES PH 8.5
Crystal Properties Matthews coefficient Solvent content 2.7 54
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 42.5 α = 90 b = 72.47 β = 90 c = 90.94 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 MARRESEARCH MIRRORS 2007-06-30 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON SLS BEAMLINE X10SA SLS X10SA
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 1.55 38 98.8 0.08 34.1 26.3 41020 4.9 23.2
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 1.55 1.6 90.2 0.64 4.9 14.4
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Starting model 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 SAD THROUGHOUT NONE 1.55 38.52 38986 2052 98.7 0.174 0.173 0.1723 0.194 0.1948 RANDOM 17
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] 0.86 -0.48 -0.38
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 34.251 r_dihedral_angle_4_deg 16.464 r_dihedral_angle_3_deg 13.268 r_dihedral_angle_1_deg 6.477 r_scangle_it 4.338 r_scbond_it 3.313 r_mcangle_it 1.938 r_angle_refined_deg 1.726 r_mcbond_it 1.433 r_nbtor_refined 0.319
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 34.251 r_dihedral_angle_4_deg 16.464 r_dihedral_angle_3_deg 13.268 r_dihedral_angle_1_deg 6.477 r_scangle_it 4.338 r_scbond_it 3.313 r_mcangle_it 1.938 r_angle_refined_deg 1.726 r_mcbond_it 1.433 r_nbtor_refined 0.319 r_nbd_refined 0.209 r_symmetry_vdw_refined 0.199 r_symmetry_hbond_refined 0.151 r_xyhbond_nbd_refined 0.135 r_chiral_restr 0.113 r_bond_refined_d 0.018 r_gen_planes_refined 0.009 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 Atoms Number Protein Atoms 1703 Nucleic Acid Atoms Solvent Atoms 225 Heterogen Atoms 18
Software Software Software Name Purpose XDS data reduction XSCALE data scaling HKL2Map phasing ARP/wARP phasing REFMAC refinement