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Crystal structure of FitE (crystal form 2), a group III periplasmic siderophore binding protein
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 3BE5 PDB entry 3BE5
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION 7.5 294 0.1M Tris-HCl pH 7.5, 0.2M MgCl2, 22% (w/v) PEG 3350, VAPOR DIFFUSION, temperature 294K
Crystal Properties Matthews coefficient Solvent content 2.36 47.78
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 50.815 α = 90 b = 109.12 β = 90 c = 221.992 γ = 90
Symmetry Space Group P 21 21 21
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 Cryogenically cooled double crystal monochromator with horizontal focusing sagitally bent second mono crystal 2006-11-12 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON NSLS BEAMLINE X29A 1.10000 NSLS X29A
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 1.82 50 0.081 13.7 4.6 102274 4 18.9
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R-Sym I (Observed) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 1.82 1.89 63.7 0.182 4.1 2.4 6957
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 3BE5 1.82 49.45 97076 5120 91.96 0.18975 0.18823 0.1876 0.21851 0.2182 RANDOM 21.31
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] -0.26 1.96 -1.7
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 31.501 r_dihedral_angle_4_deg 16.688 r_dihedral_angle_3_deg 13.394 r_dihedral_angle_1_deg 4.649 r_scangle_it 2.446 r_scbond_it 1.476 r_angle_refined_deg 1.046 r_mcangle_it 0.944 r_mcbond_it 0.609 r_nbtor_refined 0.301
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 31.501 r_dihedral_angle_4_deg 16.688 r_dihedral_angle_3_deg 13.394 r_dihedral_angle_1_deg 4.649 r_scangle_it 2.446 r_scbond_it 1.476 r_angle_refined_deg 1.046 r_mcangle_it 0.944 r_mcbond_it 0.609 r_nbtor_refined 0.301 r_nbd_refined 0.193 r_symmetry_hbond_refined 0.164 r_symmetry_vdw_refined 0.14 r_xyhbond_nbd_refined 0.137 r_chiral_restr 0.072 r_metal_ion_refined 0.057 r_bond_refined_d 0.008 r_gen_planes_refined 0.003
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 8992 Nucleic Acid Atoms Solvent Atoms 807 Heterogen Atoms 26
Software Software Software Name Purpose REFMAC refinement ADSC data collection HKL-2000 data reduction HKL-2000 data scaling MOLREP phasing