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Electron Transfer Complex between Horse Heart Cytochrome c and Zinc-Porphyrin Substituted Cytochrome c Peroxidase
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 2PCB
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 7 298 MPD, pH 7.0, VAPOR DIFFUSION, SITTING DROP, temperature 298K
Crystal Properties Matthews coefficient Solvent content 3.19 61.1
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 104.465 α = 90 b = 104.465 β = 90 c = 186.884 γ = 90
Symmetry Space Group P 43 21 2
Diffraction Diffraction Experiment ID # Crystal ID Scattering Type Data Collection Temperature Detector Detector Type Details Collection Date Monochromator Protocol 1 1 x-ray 78 CCD ADSC QUANTUM 4 2003-03-10 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON CHESS BEAMLINE A1 0.9363 CHESS A1
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (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 2.55 30 10.4 3.8 132655 34216
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 2.55 2.64 3.9 3312
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 2PCB 2.55 20 32279 32279 1685 100 0.27303 0.27303 0.27131 0.2659 0.30632 0.3026 RANDOM 58.565
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] -0.85 -0.85 1.69
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 43.118 r_dihedral_angle_4_deg 25.815 r_dihedral_angle_3_deg 22.602 r_scangle_it 5.905 r_scbond_it 4.563 r_mcangle_it 2.528 r_angle_refined_deg 2.217 r_mcbond_it 1.586 r_dihedral_angle_1_deg 1.545 r_symmetry_hbond_refined 1.021
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 43.118 r_dihedral_angle_4_deg 25.815 r_dihedral_angle_3_deg 22.602 r_scangle_it 5.905 r_scbond_it 4.563 r_mcangle_it 2.528 r_angle_refined_deg 2.217 r_mcbond_it 1.586 r_dihedral_angle_1_deg 1.545 r_symmetry_hbond_refined 1.021 r_symmetry_vdw_refined 0.233 r_nbd_refined 0.212 r_xyhbond_nbd_refined 0.184 r_chiral_restr 0.154 r_metal_ion_refined 0.05 r_bond_refined_d 0.023 r_gen_planes_refined 0.018 r_bond_other_d r_angle_other_deg r_gen_planes_other r_nbd_other r_nbtor_refined r_nbtor_other r_xyhbond_nbd_other r_metal_ion_other r_symmetry_vdw_other r_symmetry_hbond_other r_mcbond_other r_rigid_bond_restr r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 5573 Nucleic Acid Atoms Solvent Atoms 320 Heterogen Atoms 139
Software Software Software Name Purpose REFMAC refinement DENZO data reduction SCALEPACK data scaling CNS phasing