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Crystal structure of a dj-1/pfpi-like protein (shew_2856) from shewanella loihica pv-4 at 1.76 A resolution
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 7.2 277 NANODROP, 0.2M Na Tartrate, 20.0% PEG 3350, No Buffer pH 7.2, VAPOR DIFFUSION, SITTING DROP, temperature 277K
Crystal Properties Matthews coefficient Solvent content 2.51 51.05
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 71.32 α = 90 b = 71.32 β = 90 c = 180.63 γ = 120
Symmetry Space Group P 61 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 2007-10-04 M MAD
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON ALS BEAMLINE 8.2.2 0.9537, 0.9798, 0.9796 ALS 8.2.2
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 1.76 29.223 99.4 0.083 13.14 10.35 27863 -3 22.32
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 1.76 1.82 95.4 0.806 2
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method 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 MAD THROUGHOUT 1.76 29.223 27782 1398 99.88 0.163 0.162 0.1679 0.19 0.1919 RANDOM 18.478
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] 0.59 0.3 0.59 -0.89
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 37.769 r_dihedral_angle_4_deg 20.813 r_dihedral_angle_3_deg 12.681 r_scangle_it 6.046 r_dihedral_angle_1_deg 4.968 r_scbond_it 4.785 r_mcangle_it 2.502 r_mcbond_it 1.862 r_angle_refined_deg 1.397 r_angle_other_deg 0.984
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 37.769 r_dihedral_angle_4_deg 20.813 r_dihedral_angle_3_deg 12.681 r_scangle_it 6.046 r_dihedral_angle_1_deg 4.968 r_scbond_it 4.785 r_mcangle_it 2.502 r_mcbond_it 1.862 r_angle_refined_deg 1.397 r_angle_other_deg 0.984 r_mcbond_other 0.461 r_symmetry_hbond_refined 0.219 r_nbd_refined 0.213 r_nbd_other 0.192 r_xyhbond_nbd_refined 0.177 r_nbtor_refined 0.174 r_symmetry_vdw_refined 0.169 r_symmetry_vdw_other 0.158 r_chiral_restr 0.092 r_nbtor_other 0.089 r_bond_refined_d 0.015 r_gen_planes_refined 0.005 r_bond_other_d 0.001 r_gen_planes_other 0.001
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 1604 Nucleic Acid Atoms Solvent Atoms 204 Heterogen Atoms 12
Software Software Software Name Purpose REFMAC refinement PHENIX refinement SOLVE phasing MolProbity model building XSCALE data scaling PDB_EXTRACT data extraction ADSC data collection XDS data reduction