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Crystal structure of Putative PhoU-like phosphate regulatory protein (BT4638) from BACTEROIDES THETAIOTAOMICRON VPI-5482 at 1.93 A resolution
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 2IIU PDB entry 2iiu,1xwm experimental model PDB 1XWM PDB entry 2iiu,1xwm
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 8.5 277 20.0% Glycerol, 1.6M NH4H2PO3, 0.1M TRIS pH 8.5, NANODROP, VAPOR DIFFUSION, SITTING DROP, temperature 277K
Crystal Properties Matthews coefficient Solvent content 2.73 54.94
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 79.587 α = 90 b = 79.587 β = 90 c = 237.385 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 collimating mirror, toroid focusing mirror 2004-07-18 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON SSRL BEAMLINE BL9-2 SSRL BL9-2
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (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 1.93 44.972 85.3 0.071 5.3 18980 16.512
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 2iiu,1xwm 1.93 44.972 18940 981 100 0.168 0.166 0.1723 0.202 0.2034 RANDOM 14.477
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] 0.33 0.16 0.33 -0.49
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 35.174 r_dihedral_angle_4_deg 15.928 r_dihedral_angle_3_deg 11.84 r_dihedral_angle_1_deg 3.075 r_scangle_it 1.84 r_mcangle_it 1.526 r_angle_refined_deg 1.471 r_scbond_it 1.068 r_angle_other_deg 0.98 r_mcbond_it 0.869
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 35.174 r_dihedral_angle_4_deg 15.928 r_dihedral_angle_3_deg 11.84 r_dihedral_angle_1_deg 3.075 r_scangle_it 1.84 r_mcangle_it 1.526 r_angle_refined_deg 1.471 r_scbond_it 1.068 r_angle_other_deg 0.98 r_mcbond_it 0.869 r_mcbond_other 0.16 r_chiral_restr 0.098 r_bond_refined_d 0.015 r_gen_planes_refined 0.006 r_bond_other_d 0.001 r_gen_planes_other 0.001
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 1786 Nucleic Acid Atoms Solvent Atoms 187 Heterogen Atoms 35
Software Software Software Name Purpose REFMAC refinement PHENIX refinement MolProbity model building SCALA data scaling PDB_EXTRACT data extraction MOSFLM data reduction MOLREP phasing