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Crystal Structure of Haemophilus influenzae Y196A 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 8.5 293 28% PEG 550 MME, 0.1M Tris pH 8.5, VAPOR DIFFUSION, HANGING DROP, temperature 293K
Crystal Properties Matthews coefficient Solvent content 1.97 37.53
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 106.025 α = 90 b = 75.573 β = 90 c = 33.103 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 1.89 62 92.32 0.049 9.94 3.05 21800 20126 20.802
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) 1.9 2.03 92.32 0.2838 2.02
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 1.89 62 20067 19046 1021 91.41 0.187 0.187 0.184 0.1933 0.235 0.2464 RANDOM 20.673
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] -0.9 0.48 0.41
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_1_deg 5.727 r_scangle_it 2.986 r_scbond_it 1.791 r_angle_refined_deg 1.155 r_mcangle_it 1.091 r_angle_other_deg 0.761 r_mcbond_it 0.594 r_symmetry_vdw_other 0.281 r_nbd_other 0.239 r_symmetry_vdw_refined 0.227
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_1_deg 5.727 r_scangle_it 2.986 r_scbond_it 1.791 r_angle_refined_deg 1.155 r_mcangle_it 1.091 r_angle_other_deg 0.761 r_mcbond_it 0.594 r_symmetry_vdw_other 0.281 r_nbd_other 0.239 r_symmetry_vdw_refined 0.227 r_symmetry_hbond_refined 0.22 r_nbd_refined 0.192 r_xyhbond_nbd_refined 0.171 r_nbtor_other 0.084 r_chiral_restr 0.071 r_bond_refined_d 0.009 r_gen_planes_refined 0.004 r_bond_other_d 0.002 r_gen_planes_other 0.002
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 2273 Nucleic Acid Atoms Solvent Atoms 245 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