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Crystal Structure of the Protein RPA1889 from Rhodopseudomonas palustris CGA009
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 7 293 5% Tascimate, 10% PEG5000 MME, 0.1M HEPES, pH 7.0, VAPOR DIFFUSION, HANGING DROP, temperature 293K
Crystal Properties Matthews coefficient Solvent content 2.46 50.05
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 78.022 α = 90 b = 78.022 β = 90 c = 38.979 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 SBC-3 2006-06-09 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON APS BEAMLINE 19-BM 0.97904 APS 19-BM
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 2 67.57 99.7 0.066 0.057 7 9484 9449 -3 30.3
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 2 2.02 100 0.299 0.298 6.83 7.1 206
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Resolution (High) Resolution (Low) Number Reflections (All) 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 SAD THROUGHOUT 2 33.79 9449 8989 451 99.73 0.17603 0.17472 0.1746 0.20189 0.1996 RANDOM 33.113
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] 0.86 0.43 0.86 -1.29
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 35.018 r_dihedral_angle_3_deg 13.601 r_dihedral_angle_4_deg 13.223 r_dihedral_angle_1_deg 6.365 r_scangle_it 4.779 r_scbond_it 3.622 r_angle_refined_deg 1.605 r_mcangle_it 1.558 r_mcbond_it 1.254 r_nbtor_refined 0.297
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 35.018 r_dihedral_angle_3_deg 13.601 r_dihedral_angle_4_deg 13.223 r_dihedral_angle_1_deg 6.365 r_scangle_it 4.779 r_scbond_it 3.622 r_angle_refined_deg 1.605 r_mcangle_it 1.558 r_mcbond_it 1.254 r_nbtor_refined 0.297 r_symmetry_hbond_refined 0.223 r_symmetry_vdw_refined 0.214 r_nbd_refined 0.202 r_xyhbond_nbd_refined 0.155 r_chiral_restr 0.101 r_bond_refined_d 0.02 r_gen_planes_refined 0.007 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_refined 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_rigid_bond_restr r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 929 Nucleic Acid Atoms Solvent Atoms 92 Heterogen Atoms 8
Software Software Software Name Purpose REFMAC refinement HKL-2000 data collection HKL-2000 data reduction HKL-2000 data scaling HKL-3000 phasing SHELXD phasing SHELXE model building MLPHARE phasing DM phasing CCP4 phasing SOLVE phasing RESOLVE phasing ARP/wARP model building Coot model building O model building