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Crystal Structure of CheY-Mg(2+)-BeF(3)(-) in Complex with CheZ(C19) Peptide solved from a P2(1)2(1)2 Crystal
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1FQW PDB ENTRY 1FQW
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 6 298 37.5 % PEG 8000, 0.1 M ammonium thiocyanate, 0.1 M MES, pH 6.0, VAPOR DIFFUSION, HANGING DROP, temperature 298.0K
Crystal Properties Matthews coefficient Solvent content 2.16 43.12
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 68.058 α = 90 b = 162.972 β = 90 c = 37.341 γ = 90
Symmetry Space Group P 21 21 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 IMAGE PLATE MAR scanner 345 mm plate vertical mirrors 2006-03-11 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON NSLS BEAMLINE X4C 0.9795 NSLS X4C
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 2.5 30 99.5 0.137 6.9 8.4 15119 -3
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 2.5 2.59 99.2 0.355 8.6 1438
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 (All) 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 1FQW 2.6 29.4 13375 1371 99.4 0.22 0.22 0.213 0.2135 0.274 0.2658 RANDOM 22.146
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] -0.05 0.06 -0.01
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 37.333 r_dihedral_angle_3_deg 17.286 r_dihedral_angle_4_deg 9.726 r_dihedral_angle_1_deg 6.267 r_scangle_it 2.065 r_scbond_it 1.412 r_angle_refined_deg 1.124 r_mcbond_it 0.636 r_mcangle_it 0.615 r_nbtor_refined 0.302
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 37.333 r_dihedral_angle_3_deg 17.286 r_dihedral_angle_4_deg 9.726 r_dihedral_angle_1_deg 6.267 r_scangle_it 2.065 r_scbond_it 1.412 r_angle_refined_deg 1.124 r_mcbond_it 0.636 r_mcangle_it 0.615 r_nbtor_refined 0.302 r_symmetry_vdw_refined 0.272 r_nbd_refined 0.209 r_symmetry_hbond_refined 0.196 r_chiral_restr 0.153 r_xyhbond_nbd_refined 0.148 r_metal_ion_refined 0.065 r_bond_refined_d 0.014 r_gen_planes_refined 0.004
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 3308 Nucleic Acid Atoms Solvent Atoms 54 Heterogen Atoms 27
Software Software Software Name Purpose DENZO data reduction SCALEPACK data scaling PHASER phasing DM phasing REFMAC refinement PDB_EXTRACT data extraction MAR345 data collection