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Crystal Structure of Haemophilus influenzae H9A 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 PEG 550 MME, Tris, pH 7.6, VAPOR DIFFUSION, HANGING DROP, temperature 277K
Crystal Properties Matthews coefficient Solvent content 2.01 38.76
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 105.999 α = 90 b = 75.656 β = 90 c = 33.774 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 2002-07-02 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) 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 2.1 62.02 97 15946 15136
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 2.1 2.18 92.7
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 2.1 62.02 15946 15136 810 97.01 0.17112 0.17112 0.16834 0.1801 0.22562 0.2376 RANDOM 12.99
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] -1.08 1.08
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_1_deg 5.334 r_scangle_it 2.444 r_scbond_it 1.43 r_angle_refined_deg 1.074 r_mcangle_it 0.81 r_angle_other_deg 0.761 r_mcbond_it 0.424 r_symmetry_vdw_other 0.274 r_nbd_other 0.236 r_symmetry_hbond_refined 0.191
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_1_deg 5.334 r_scangle_it 2.444 r_scbond_it 1.43 r_angle_refined_deg 1.074 r_mcangle_it 0.81 r_angle_other_deg 0.761 r_mcbond_it 0.424 r_symmetry_vdw_other 0.274 r_nbd_other 0.236 r_symmetry_hbond_refined 0.191 r_nbd_refined 0.189 r_xyhbond_nbd_refined 0.183 r_symmetry_vdw_refined 0.153 r_nbtor_other 0.081 r_chiral_restr 0.065 r_bond_refined_d 0.009 r_gen_planes_refined 0.004 r_bond_other_d 0.002 r_gen_planes_other 0.001
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 2275 Nucleic Acid Atoms Solvent Atoms 300 Heterogen Atoms 13
Software Software Software Name Purpose REFMAC refinement HKL-2000 data reduction CCP4 data scaling MOLREP phasing