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Cytochrome C Peroxidase in complex with (1-methyl-1h-pyrrol-2-yl)-methylamine
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1AC4
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 6 291 MES, MPD, pH 6.0, vapor diffusion, hanging drop, temperature 291K, pH 6.00
Crystal Properties Matthews coefficient Solvent content 3.11 60.49
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 51.011 α = 90 b = 75.699 β = 90 c = 107.062 γ = 90
Symmetry Space Group P 21 21 21
Diffraction Diffraction Experiment ID # Crystal ID Scattering Type Data Collection Temperature Detector Detector Type Details Collection Date Monochromator Protocol 1 1 x-ray 110 CCD ADSC QUANTUM 315 KOHZU: DOUBLE CRYSTAL SI(111) 2007-05-03 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON ALS BEAMLINE 8.3.1 ALS 8.3.1
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge 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 1.39 50 99.1 0.045 19.2 3.9 82773
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R Merge I (Observed) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 1.39 1.44 93.9 0.202 3.4
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 (Observed) R-Work (Depositor) R-Work (DCC) R-Free (Depositor) R-Free (DCC) R-Free Selection Details Mean Isotropic B X-RAY DIFFRACTION THROUGHOUT 1AC4 1.39 30 82707 82707 4146 99 0.139 0.138 0.1441 0.154 0.1552 RANDOM 10.85
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] 0.25 0.54 -0.79
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 35.041 r_dihedral_angle_4_deg 24.407 r_dihedral_angle_3_deg 11.319 r_dihedral_angle_1_deg 5.489 r_sphericity_free 4.327 r_sphericity_bonded 2.44 r_scangle_it 2.206 r_scbond_it 1.7 r_rigid_bond_restr 1.225 r_angle_refined_deg 1.191
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 35.041 r_dihedral_angle_4_deg 24.407 r_dihedral_angle_3_deg 11.319 r_dihedral_angle_1_deg 5.489 r_sphericity_free 4.327 r_sphericity_bonded 2.44 r_scangle_it 2.206 r_scbond_it 1.7 r_rigid_bond_restr 1.225 r_angle_refined_deg 1.191 r_mcangle_it 1.15 r_mcbond_it 0.958 r_angle_other_deg 0.884 r_mcbond_other 0.386 r_nbd_refined 0.22 r_symmetry_vdw_other 0.22 r_symmetry_hbond_refined 0.216 r_nbd_other 0.187 r_nbtor_refined 0.186 r_xyhbond_nbd_refined 0.109 r_symmetry_vdw_refined 0.103 r_nbtor_other 0.084 r_chiral_restr 0.078 r_bond_refined_d 0.008 r_gen_planes_refined 0.005 r_bond_other_d 0.001 r_gen_planes_other 0.001 r_xyhbond_nbd_other r_metal_ion_refined r_metal_ion_other r_symmetry_hbond_other r_symmetry_metal_ion_refined r_symmetry_metal_ion_other
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 2341 Nucleic Acid Atoms Solvent Atoms 489 Heterogen Atoms 56
Software Software Software Name Purpose DENZO data reduction SCALEPACK data scaling REFMAC refinement PDB_EXTRACT data extraction REFMAC phasing