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Crystal structure of group III truncated hemoglobin from Campylobacter jejuni
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1UX8 PDB ENTRY 1UX8
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 5 277 2.0M Ammonium sulfate, 0.1M Sodium acetate, pH 5, VAPOR DIFFUSION, HANGING DROP, temperature 277K, pH 5.0
Crystal Properties Matthews coefficient Solvent content 2.88 57.24
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 95.588 α = 90 b = 95.588 β = 90 c = 65.424 γ = 120
Symmetry Space Group P 32 2 1
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 210 cylindrical grazing incidence mirror 2006-03-15 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON ESRF BEAMLINE ID29 0.95370 ESRF ID29
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge I (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 2.15 65.94 100 0.067 0.067 30.4 14.4 19090 1 1 37.6
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R Merge I (Observed) R-Sym I (Observed) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 2.15 2.27 100 0.313 0.313 8.9 14.8 2754
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 1UX8 2.15 31.3 17121 1934 100 0.21154 0.20593 0.2084 0.262 0.2599 RANDOM 35.224
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]
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 37.28 r_dihedral_angle_3_deg 16.396 r_dihedral_angle_4_deg 14.204 r_dihedral_angle_1_deg 4.85 r_scangle_it 2.748 r_scbond_it 1.768 r_mcangle_it 1.265 r_angle_refined_deg 1.13 r_mcbond_it 0.737 r_nbtor_refined 0.3
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 37.28 r_dihedral_angle_3_deg 16.396 r_dihedral_angle_4_deg 14.204 r_dihedral_angle_1_deg 4.85 r_scangle_it 2.748 r_scbond_it 1.768 r_mcangle_it 1.265 r_angle_refined_deg 1.13 r_mcbond_it 0.737 r_nbtor_refined 0.3 r_symmetry_vdw_refined 0.277 r_nbd_refined 0.196 r_symmetry_hbond_refined 0.152 r_xyhbond_nbd_refined 0.129 r_chiral_restr 0.086 r_metal_ion_refined 0.012 r_bond_refined_d 0.01 r_gen_planes_refined 0.004
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 2094 Nucleic Acid Atoms Solvent Atoms 92 Heterogen Atoms 122
Software Software Software Name Purpose REFMAC refinement ProDC data collection MOSFLM data reduction CCP4 data scaling MOLREP phasing