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Structure of GUN4 from Chlamydomonas reinhardtii
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1Z3X
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 8 293 1:1 ratio of protein (35 mg/mL in 20 mM Tricine (pH 8.0), 2 mM beta-mercaptoethanol) to well solution (1.0 M ammonium citrate (pH 7.0), 0.1 M Bis Tris Propane (pH 7.0). Crystals only appeared after 44 weeks, likely the time taken for proteolysis, resulting in the N- and C-terminal truncations
Crystal Properties Matthews coefficient Solvent content 2.64 53
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 114.998 α = 90 b = 114.998 β = 90 c = 141.193 γ = 120
Symmetry Space Group P 32 2 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 315r 2014-06-20 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON AUSTRALIAN SYNCHROTRON BEAMLINE MX2 0.9537 Australian Synchrotron MX2
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 3.5 44.56 99.1 0.21 5.2 3.5 13965 78
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 3.5 3.83 99 0.666 1.9 3.6
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 MOLECULAR REPLACEMENT THROUGHOUT 1Z3X 3.5 44.5 13187 753 99.05 0.25907 0.25602 0.2548 0.31315 0.3089 RANDOM 57.378
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 -0.28 -0.55 1.79
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 33.429 r_dihedral_angle_3_deg 16.219 r_dihedral_angle_4_deg 12.238 r_long_range_B_refined 12.079 r_long_range_B_other 12.079 r_scangle_other 6.439 r_mcangle_it 6.389 r_mcangle_other 6.388 r_dihedral_angle_1_deg 6.352 r_scbond_it 3.999
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 33.429 r_dihedral_angle_3_deg 16.219 r_dihedral_angle_4_deg 12.238 r_long_range_B_refined 12.079 r_long_range_B_other 12.079 r_scangle_other 6.439 r_mcangle_it 6.389 r_mcangle_other 6.388 r_dihedral_angle_1_deg 6.352 r_scbond_it 3.999 r_scbond_other 3.998 r_mcbond_it 3.979 r_mcbond_other 3.978 r_angle_other_deg 1.578 r_angle_refined_deg 1.466 r_chiral_restr 0.088 r_bond_refined_d 0.011 r_bond_other_d 0.007 r_gen_planes_refined 0.007 r_gen_planes_other 0.005 r_nbd_refined r_nbd_other r_nbtor_refined r_nbtor_other r_xyhbond_nbd_refined r_xyhbond_nbd_other r_metal_ion_refined r_metal_ion_other r_symmetry_vdw_refined r_symmetry_vdw_other r_symmetry_hbond_refined r_symmetry_hbond_other r_symmetry_metal_ion_refined r_symmetry_metal_ion_other r_scangle_it r_rigid_bond_restr r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 6241 Nucleic Acid Atoms Solvent Atoms Heterogen Atoms
Software Software Software Name Purpose REFMAC refinement MOSFLM data reduction Aimless data scaling PHASER phasing