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Cytochrome C Peroxidase W191G in complex with 1,2-dimethyl-1h-pyridin-5-amine
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 3.07 59.93
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 50.968 α = 90 b = 75.044 β = 90 c = 106.579 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 1.5 50 92 0.051 20.7 3.6 61221
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 1.5 1.55 94.9 0.224 3.5
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 1.5 30 60902 60902 3120 92 0.145 0.144 0.1528 0.167 0.1748 RANDOM 13.16
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] -0.66 0.84 -0.19
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 34.066 r_dihedral_angle_4_deg 24.696 r_dihedral_angle_3_deg 12.487 r_dihedral_angle_1_deg 5.492 r_sphericity_free 5.096 r_sphericity_bonded 2.606 r_scangle_it 2.474 r_scbond_it 1.931 r_mcangle_it 1.318 r_angle_refined_deg 1.216
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 34.066 r_dihedral_angle_4_deg 24.696 r_dihedral_angle_3_deg 12.487 r_dihedral_angle_1_deg 5.492 r_sphericity_free 5.096 r_sphericity_bonded 2.606 r_scangle_it 2.474 r_scbond_it 1.931 r_mcangle_it 1.318 r_angle_refined_deg 1.216 r_mcbond_it 1.066 r_rigid_bond_restr 0.986 r_angle_other_deg 0.885 r_mcbond_other 0.43 r_symmetry_vdw_other 0.229 r_nbd_refined 0.221 r_nbd_other 0.193 r_nbtor_refined 0.185 r_xyhbond_nbd_refined 0.139 r_symmetry_hbond_refined 0.132 r_symmetry_vdw_refined 0.118 r_nbtor_other 0.083 r_chiral_restr 0.081 r_bond_refined_d 0.01 r_gen_planes_refined 0.006 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 2343 Nucleic Acid Atoms Solvent Atoms 455 Heterogen Atoms 72
Software Software Software Name Purpose DENZO data reduction SCALEPACK data scaling REFMAC refinement PDB_EXTRACT data extraction REFMAC phasing