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Crystal structure of a putative PhoU-like phosphate regulatory protein (NP_719307.1) from Shewanella oneidensis MR-1 at 2.28 A resolution.
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP, NANODROP 6.5 277 1.0M NaCitrate, 0.1M Cacodylate, pH 6.5, VAPOR DIFFUSION, SITTING DROP, NANODROP, temperature 277K
Crystal Properties Matthews coefficient Solvent content 2.7 54.08
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 99.88 α = 90 b = 99.88 β = 90 c = 397.27 γ = 120
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 Flat mirror (vertical focusing) 2006-05-07 M MAD
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON SSRL BEAMLINE BL11-1 0.918370, 0.979318, 0.979035 SSRL BL11-1
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 2 46.73 98.5 0.134 14.54 20.2 52278 39.053
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 2 2.05 100 0.651 2.91
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 2.28 47.458 35397 1812 99.88 0.202 0.2 0.208 0.247 0.2531 RANDOM 44.494
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] 2.44 1.22 2.44 -3.66
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 33.541 r_dihedral_angle_4_deg 12.969 r_dihedral_angle_3_deg 12.594 r_scangle_it 7.449 r_scbond_it 5.242 r_dihedral_angle_1_deg 2.878 r_mcangle_it 2.858 r_mcbond_it 1.826 r_angle_refined_deg 1.509 r_angle_other_deg 0.88
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 33.541 r_dihedral_angle_4_deg 12.969 r_dihedral_angle_3_deg 12.594 r_scangle_it 7.449 r_scbond_it 5.242 r_dihedral_angle_1_deg 2.878 r_mcangle_it 2.858 r_mcbond_it 1.826 r_angle_refined_deg 1.509 r_angle_other_deg 0.88 r_mcbond_other 0.372 r_symmetry_vdw_other 0.261 r_symmetry_hbond_refined 0.244 r_nbd_refined 0.228 r_xyhbond_nbd_refined 0.202 r_nbtor_refined 0.184 r_nbd_other 0.159 r_symmetry_vdw_refined 0.158 r_nbtor_other 0.091 r_chiral_restr 0.088 r_bond_refined_d 0.017 r_gen_planes_refined 0.005 r_bond_other_d 0.002 r_gen_planes_other 0.002
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 4799 Nucleic Acid Atoms Solvent Atoms 203 Heterogen Atoms 16
Software Software Software Name Purpose MolProbity model building SHARP phasing REFMAC refinement XSCALE data scaling PDB_EXTRACT data extraction XDS data reduction SHELXD phasing