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R396W mutant of the vanadium-dependent bromoperoxidase from Corallina pilulifera in complex with Br ion.
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1UP8
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 293 0.1M Tris-HBr, pH 7.4, 1.3M ammonium dihydrogen phosphate
Crystal Properties Matthews coefficient Solvent content 3.26 62.23
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 182.484 α = 90 b = 182.484 β = 90 c = 177.592 γ = 120
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 MAR CCD 165 mm 2002-12-02 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON EMBL/DESY, HAMBURG BEAMLINE BW7A 0.9763 EMBL/DESY, HAMBURG BW7A
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Sym I (Observed) CC (Half) 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 1.78 29.996 97 0.048 0.993 13.2 2.5 309584
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R-Sym I (Observed) CC (Half) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 1.78 1.81 0.397 0.69
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 (All) R-Work (Depositor) R-Work (DCC) R-Free (Depositor) R-Free (DCC) Mean Isotropic B X-RAY DIFFRACTION MOLECULAR REPLACEMENT FREE R-VALUE 1up8 1.78 29.996 309394 15613 96.871 0.144 0.1428 0.1428 0.1713 0.1713 19.869
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] 0.262 0.131 0.262 -0.85
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 33.661 r_dihedral_angle_4_deg 16.913 r_dihedral_angle_3_deg 12.749 r_lrange_it 6.606 r_dihedral_angle_1_deg 5.9 r_scangle_it 5.723 r_scbond_it 4.938 r_mcangle_it 3.545 r_mcbond_it 2.983 r_angle_refined_deg 1.54
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 33.661 r_dihedral_angle_4_deg 16.913 r_dihedral_angle_3_deg 12.749 r_lrange_it 6.606 r_dihedral_angle_1_deg 5.9 r_scangle_it 5.723 r_scbond_it 4.938 r_mcangle_it 3.545 r_mcbond_it 2.983 r_angle_refined_deg 1.54 r_nbtor_refined 0.321 r_symmetry_nbd_refined 0.225 r_nbd_refined 0.212 r_symmetry_xyhbond_nbd_refined 0.18 r_xyhbond_nbd_refined 0.15 r_chiral_restr 0.101 r_metal_ion_refined 0.098 r_ncsr_local_group_2 0.063 r_ncsr_local_group_6 0.062 r_ncsr_local_group_4 0.061 r_ncsr_local_group_1 0.059 r_ncsr_local_group_3 0.057 r_ncsr_local_group_5 0.057 r_bond_refined_d 0.011 r_gen_planes_refined 0.009
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 18440 Nucleic Acid Atoms Solvent Atoms 3697 Heterogen Atoms 304
Software Software Software Name Purpose REFMAC refinement DENZO data reduction SCALEPACK data scaling O model building Coot model building MOLREP phasing