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Cytochrome b562 integral fusion with EGFP
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 256B 256B, 2WUR experimental model PDB 2WUR 256B, 2WUR
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION 6.4 0.1 M MES/NAOH, PH 6.4, 200 MM magnesium acetate and 20% (W/V) PEG 8000; for cryoprotection 16% glycerol was added to the reservoir buffer, VAPOR DIFFUSION
Crystal Properties Matthews coefficient Solvent content 3.09 60.24
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 64.752 α = 90 b = 125.2 β = 90.37 c = 89.255 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 ADSC QUANTUM 315 BENT MIRRORS 2010-12-05 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON DIAMOND BEAMLINE I02 0.97949 Diamond I02
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge I (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 2.75 30 99.3 0.034 0.034 19.9 3.7 36793
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R Merge I (Observed) R-Sym I (Observed) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 2.75 2.82 100 0.324 0.324 2.4 3.8
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 (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 256B, 2WUR 2.75 28.94 34888 1882 99.35 0.20317 0.20099 0.1971 0.24192 0.2395 RANDOM 63.656
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] -0.35 0.55 2.52 -2.15
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 36.596 r_dihedral_angle_3_deg 16.22 r_dihedral_angle_4_deg 13.865 r_dihedral_angle_1_deg 6.25 r_angle_other_deg 4.18 r_scangle_it 2.093 r_angle_refined_deg 1.508 r_scbond_it 1.258 r_mcangle_it 0.899 r_mcbond_it 0.471
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 36.596 r_dihedral_angle_3_deg 16.22 r_dihedral_angle_4_deg 13.865 r_dihedral_angle_1_deg 6.25 r_angle_other_deg 4.18 r_scangle_it 2.093 r_angle_refined_deg 1.508 r_scbond_it 1.258 r_mcangle_it 0.899 r_mcbond_it 0.471 r_symmetry_vdw_refined 0.234 r_nbd_other 0.233 r_nbd_refined 0.214 r_symmetry_vdw_other 0.201 r_nbtor_refined 0.18 r_xyhbond_nbd_refined 0.176 r_symmetry_hbond_refined 0.173 r_nbtor_other 0.118 r_chiral_restr 0.077 r_xyhbond_nbd_other 0.066 r_metal_ion_refined 0.042 r_bond_refined_d 0.012 r_gen_planes_refined 0.005 r_gen_planes_other 0.005 r_bond_other_d r_metal_ion_other r_symmetry_hbond_other r_symmetry_metal_ion_refined r_symmetry_metal_ion_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 7964 Nucleic Acid Atoms Solvent Atoms 344 Heterogen Atoms 129
Software Software Software Name Purpose MOLREP phasing REFMAC refinement XDS data reduction SCALA data scaling