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Structure of the D181N variant of catalase HPII from E. coli
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1GGE PDB ENTRY 1GGE
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 9 293 15% PEG 3350, 1.6M LiCl, 0.1M Tris, pH 9.0, VAPOR DIFFUSION, HANGING DROP, temperature 293K
Crystal Properties Matthews coefficient Solvent content 2.12 41.87
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 93.434 α = 90 b = 132.881 β = 109.66 c = 122.098 γ = 90
Symmetry Space Group P 1 21 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 MARRESEARCH 2003-07-08 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON ESRF BEAMLINE BM14 0.9763 ESRF BM14
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 1.9 27.81 99.5 0.097 7.2 218818 218251
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1.9 1.99 97.3 15850
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 1GGE 1.9 28 218818 207829 10989 100 0.1645 0.16727 0.16446 0.1663 0.22046 0.2208 RANDOM 20.472
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] -0.34 0.56 -0.27 0.98
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_1_deg 6.53 r_scangle_it 3.74 r_scbond_it 2.504 r_angle_refined_deg 1.634 r_mcangle_it 1.536 r_mcbond_it 0.914 r_symmetry_hbond_refined 0.336 r_symmetry_vdw_refined 0.221 r_nbd_refined 0.215 r_xyhbond_nbd_refined 0.17
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_1_deg 6.53 r_scangle_it 3.74 r_scbond_it 2.504 r_angle_refined_deg 1.634 r_mcangle_it 1.536 r_mcbond_it 0.914 r_symmetry_hbond_refined 0.336 r_symmetry_vdw_refined 0.221 r_nbd_refined 0.215 r_xyhbond_nbd_refined 0.17 r_chiral_restr 0.128 r_bond_refined_d 0.019 r_gen_planes_refined 0.008
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 23025 Nucleic Acid Atoms Solvent Atoms 3033 Heterogen Atoms 172
Software Software Software Name Purpose REFMAC refinement DENZO data reduction SCALEPACK data scaling MOLREP phasing