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Structure of Psb27 from Thermosynechococcus elongatus
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 2KMF PDB ENTRY 2KMF
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 35% W/V PEG 4K MIXED WITH EQUAL VOLUME OF 20MG/ML PROTEIN SOLUTION, HANGING DROP VAPOUR DIFFUSION
Crystal Properties Matthews coefficient Solvent content 2.03 39.35
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 36.93 α = 90 b = 50.82 β = 90 c = 53.07 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 ADSC CCD MIRRORS 2010-06-30 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON DIAMOND BEAMLINE I04 Diamond I04
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 1.6 30.31 99.8 0.07 8.31 6.52 13700
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 1.6 1.69 100 0.53 3.16 6.61
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 2KMF 1.6 30.31 12980 683 99.73 0.19246 0.1901 0.1961 0.23775 0.2439 RANDOM 16.831
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] -0.46 -0.14 0.6
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 31.278 r_dihedral_angle_4_deg 18.266 r_dihedral_angle_3_deg 13.628 r_scangle_it 5.334 r_dihedral_angle_1_deg 4.627 r_scbond_it 3.207 r_angle_refined_deg 1.892 r_mcangle_it 1.778 r_mcbond_it 1.108 r_angle_other_deg 1.026
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 31.278 r_dihedral_angle_4_deg 18.266 r_dihedral_angle_3_deg 13.628 r_scangle_it 5.334 r_dihedral_angle_1_deg 4.627 r_scbond_it 3.207 r_angle_refined_deg 1.892 r_mcangle_it 1.778 r_mcbond_it 1.108 r_angle_other_deg 1.026 r_mcbond_other 0.4 r_nbd_refined 0.241 r_symmetry_vdw_refined 0.192 r_nbtor_refined 0.184 r_symmetry_vdw_other 0.178 r_nbd_other 0.177 r_xyhbond_nbd_refined 0.152 r_symmetry_hbond_refined 0.13 r_chiral_restr 0.116 r_nbtor_other 0.089 r_xyhbond_nbd_other 0.089 r_bond_refined_d 0.023 r_gen_planes_refined 0.009 r_bond_other_d 0.001 r_gen_planes_other 0.001 r_metal_ion_refined r_metal_ion_other r_symmetry_hbond_other r_symmetry_metal_ion_refined r_symmetry_metal_ion_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 867 Nucleic Acid Atoms Solvent Atoms 130 Heterogen Atoms 1
Software Software Software Name Purpose REFMAC refinement MOSFLM data reduction SCALA data scaling PHASER phasing