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Crystal structure of Chlamydomonas reinhardtii Rubisco with large- subunit mutations V331A, T342I
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1GK8 PDB ENTRY 1GK8
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 7.5 pH 7.5
Crystal Properties Matthews coefficient Solvent content 2.03 39.01
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 120.421 α = 90 b = 178.236 β = 117.72 c = 122.758 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 MARRESEARCH 2003-09-26 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON MAX II BEAMLINE I711 MAX II I711
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 2.3 30 99.2 0.16 10.8 20.3 1285694
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 2.25 2.29 88.6 0.4 3.1
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 PDB ENTRY 1GK8 2.3 30 191997 10153 99.8 0.174 0.172 0.1726 0.203 0.1757 RANDOM 19.46
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] 0.27 -0.03 -0.23 -0.06
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 31.745 r_dihedral_angle_4_deg 16.232 r_dihedral_angle_3_deg 14.625 r_dihedral_angle_1_deg 6.196 r_scangle_it 2.424 r_scbond_it 1.509 r_angle_refined_deg 1.23 r_mcangle_it 0.901 r_mcbond_it 0.562 r_nbtor_refined 0.302
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 31.745 r_dihedral_angle_4_deg 16.232 r_dihedral_angle_3_deg 14.625 r_dihedral_angle_1_deg 6.196 r_scangle_it 2.424 r_scbond_it 1.509 r_angle_refined_deg 1.23 r_mcangle_it 0.901 r_mcbond_it 0.562 r_nbtor_refined 0.302 r_symmetry_vdw_refined 0.242 r_nbd_refined 0.19 r_symmetry_hbond_refined 0.177 r_xyhbond_nbd_refined 0.137 r_chiral_restr 0.087 r_metal_ion_refined 0.055 r_bond_refined_d 0.011 r_gen_planes_refined 0.004 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_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 38202 Nucleic Acid Atoms Solvent Atoms 2276 Heterogen Atoms 372
Software Software Software Name Purpose REFMAC refinement DENZO data reduction SCALEPACK data scaling MOLREP phasing