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Crystal structure of reduced cytochrome c6 from Synechococcus sp. PCC 7002 at ultra-high resolution
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 3DR0 PDB ENTRY 3DR0
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 6.5 292 2.2M Ammonium sulphate, 0.1M MES, pH 6.5, VAPOR DIFFUSION, HANGING DROP, temperature 292K
Crystal Properties Matthews coefficient Solvent content 2.02 39.09
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 31.86 α = 90 b = 27.69 β = 101.1 c = 44.07 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 MAR CCD 165 mm mirrors 2006-12-14 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON EMBL/DESY, HAMBURG BEAMLINE X11 0.8166 EMBL/DESY, HAMBURG X11
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 0.84 32.55 94.8 0.063 15.21 6 64908 64908 -3 9.45
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 0.84 0.86 80.6 0.507 3.23 4.3 4069
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 FREE R PDB ENTRY 3DR0 0.84 32.55 64908 64908 974 94.8 0.1058 0.1058 0.1056 0.1195 0.1271 0.124 RANDOM
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]
Coordinate Error Structure Solution Method Refinement High Resolution Refinement Low Resolution 12 664.26 800.71
RMS Deviations Key Refinement Restraint Deviation s_zero_chiral_vol 0.115 s_anti_bump_dis_restr 0.093 s_approx_iso_adps 0.08 s_angle_d 0.057 s_bond_d 0.026 s_similar_adp_cmpnt 0.025 s_rigid_bond_adp_cmpnt 0.005 s_from_restr_planes 0.0039 s_similar_dist s_non_zero_chiral_vol
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 662 Nucleic Acid Atoms Solvent Atoms 120 Heterogen Atoms 55
Software Software Software Name Purpose AUTOMAR data collection MOLREP phasing SHELXL-97 refinement XDS data reduction XDS data scaling