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Crystal Structure of Haemophilus influenzae Y195A mutant Holo Ferric ion-Binding Protein A
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1D9V PDB ENTRY 1D9V
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 7.6 277 34% PEG 550 MME, 0.1 M Tris pH 7.6, VAPOR DIFFUSION, HANGING DROP, temperature 277K
Crystal Properties Matthews coefficient Solvent content 2.04 39.82
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 106.464 α = 90 b = 75.822 β = 90 c = 34.109 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 CCD BRUKER SMART 6000 2002-07-06 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 ROTATING ANODE RIGAKU 1.5418
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 1.7 62 96.75 0.0437 15.16 6.53 31286 30268 16.071
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) 1.7 1.78 96.75 0.0694 6.67
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Starting model Resolution (High) Resolution (Low) Number Reflections (All) 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 1D9V 1.71 62 30216 28694 1522 98.87 0.192 0.192 0.19 0.2025 0.237 0.2459 RANDOM 17.37
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] -0.84 0.07 0.77
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_1_deg 5.276 r_scangle_it 3.286 r_scbond_it 2.037 r_mcangle_it 1.214 r_angle_refined_deg 1.2 r_angle_other_deg 0.791 r_mcbond_it 0.671 r_symmetry_vdw_other 0.298 r_metal_ion_refined 0.292 r_nbd_other 0.238
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_1_deg 5.276 r_scangle_it 3.286 r_scbond_it 2.037 r_mcangle_it 1.214 r_angle_refined_deg 1.2 r_angle_other_deg 0.791 r_mcbond_it 0.671 r_symmetry_vdw_other 0.298 r_metal_ion_refined 0.292 r_nbd_other 0.238 r_nbd_refined 0.2 r_symmetry_hbond_refined 0.19 r_symmetry_vdw_refined 0.181 r_xyhbond_nbd_refined 0.135 r_nbtor_other 0.082 r_chiral_restr 0.075 r_bond_refined_d 0.011 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 2275 Nucleic Acid Atoms Solvent Atoms 365 Heterogen Atoms 6
Software Software Software Name Purpose SAINT data scaling MOLREP phasing REFMAC refinement PDB_EXTRACT data extraction PROTEUM PLUS data collection SAINT data reduction