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Crystal structure of RbcX, crystal form II
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 2PEN PDB entry 2PEN
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 7.5 293 20% PEG 3350, 0.2 M KSCN, pH 7.5, VAPOR DIFFUSION, HANGING DROP, temperature 293K
Crystal Properties Matthews coefficient Solvent content 1.78 30.83
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 63.505 α = 90 b = 69.339 β = 90 c = 98.795 γ = 90
Symmetry Space Group I 2 2 2
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 315 2006-08-26 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON ESRF BEAMLINE ID29 1.00000 ESRF ID29
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge I (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 1.9 56.796 100 0.089 0.089 5.8 4.2 17567 24.103
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R Merge I (Observed) R-Sym I (Observed) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 1.9 2 100 0.575 0.575 1.3 4.3 2530
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 2PEN 1.9 20 17551 887 99.99 0.2 0.197 0.1953 0.253 0.2516 RANDOM 24.7
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] 1.31 -0.48 -0.83
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 30.372 r_dihedral_angle_4_deg 22.624 r_dihedral_angle_3_deg 18.282 r_dihedral_angle_1_deg 4.678 r_scangle_it 3.841 r_scbond_it 2.404 r_angle_refined_deg 1.39 r_mcangle_it 1.387 r_mcbond_it 0.863 r_nbtor_refined 0.296
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 30.372 r_dihedral_angle_4_deg 22.624 r_dihedral_angle_3_deg 18.282 r_dihedral_angle_1_deg 4.678 r_scangle_it 3.841 r_scbond_it 2.404 r_angle_refined_deg 1.39 r_mcangle_it 1.387 r_mcbond_it 0.863 r_nbtor_refined 0.296 r_symmetry_hbond_refined 0.255 r_nbd_refined 0.212 r_symmetry_vdw_refined 0.189 r_xyhbond_nbd_refined 0.175 r_chiral_restr 0.093 r_bond_refined_d 0.013 r_gen_planes_refined 0.005
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 1744 Nucleic Acid Atoms Solvent Atoms 147 Heterogen Atoms
Software Software Software Name Purpose SCALA data scaling MOLREP phasing REFMAC refinement PDB_EXTRACT data extraction ADSC data collection MOSFLM data reduction