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Crystal structure of Type III Rubisco SP4 mutant complexed with 2-CABP
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1GEH PDB ENTRY 1GEH
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 6 293 0.1M Acetate, 80mM CaCl2, 6% PEG6000, 10% MPD, pH6.0, VAPOR DIFFUSION, HANGING DROP, temperature 293K
Crystal Properties Matthews coefficient Solvent content 3.11 60.42
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 97.474 α = 90 b = 246.241 β = 104.1 c = 133.08 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 RAYONIX MX225HE 2009-07-03 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON SPRING-8 BEAMLINE BL41XU 1.000 SPring-8 BL41XU
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 2.09 50 96.5 0.071 15.4 345208
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) 2.09 2.13 70.3 0.384 2.3
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-Free (Depositor) R-Free (DCC) R-Free Selection Details Mean Isotropic B X-RAY DIFFRACTION MOLECULAR REPLACEMENT THROUGHOUT PDB ENTRY 1GEH 2.09 42.86 327701 17388 96.48 0.21463 0.21261 0.25286 0.2376 RANDOM 26.249
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] 1.07 -2.43 -1.66 -0.6
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 28.021 r_dihedral_angle_4_deg 17.064 r_dihedral_angle_3_deg 12.054 r_dihedral_angle_1_deg 4.696 r_scangle_it 1.344 r_scbond_it 0.786 r_angle_refined_deg 0.768 r_mcangle_it 0.562 r_mcbond_it 0.294 r_chiral_restr 0.053
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 28.021 r_dihedral_angle_4_deg 17.064 r_dihedral_angle_3_deg 12.054 r_dihedral_angle_1_deg 4.696 r_scangle_it 1.344 r_scbond_it 0.786 r_angle_refined_deg 0.768 r_mcangle_it 0.562 r_mcbond_it 0.294 r_chiral_restr 0.053 r_bond_refined_d 0.004 r_gen_planes_refined 0.003
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 34127 Nucleic Acid Atoms Solvent Atoms 2652 Heterogen Atoms 220
Software Software Software Name Purpose HKL-2000 data collection MOLREP phasing REFMAC refinement HKL-2000 data reduction HKL-2000 data scaling