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Cytochrome c' from Alcaligenes xylosoxidans - oxidized structure
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1CGO PDB ENTRY 1CGO
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 7.5 HANGING DROP VAPOUR DIFFUSION. PROTEIN AT CONCENTRATION 8 MG/ML WAS MIXED WITH AN EQUAL VOLUME OF WELL SOLUTION CONSISTING OF 55-65% SATURATED AMMONIUM SULFATE IN 100 MM HEPES BUFFER AT PH 7.5
Crystal Properties Matthews coefficient Solvent content 2.71 54.3
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 52.946 α = 90 b = 52.946 β = 90 c = 182.346 γ = 120
Symmetry Space Group P 65 2 2
Diffraction Diffraction Experiment ID # Crystal ID Scattering Type Data Collection Temperature Detector Detector Type Details Collection Date Monochromator Protocol 1 1 x-ray 100 IMAGE PLATE MARRESEARCH MIRRORS 1997-11-15 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON SRS BEAMLINE PX7.2 SRS PX7.2
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 2.05 40 99 0.109 18.8 8.1 10205 -3 23
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 2.05 2.12 98.9 0.349 5.2
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-Work (Depositor) R-Work (DCC) R-Free (Depositor) R-Free Selection Details Mean Isotropic B X-RAY DIFFRACTION MOLECULAR REPLACEMENT THROUGHOUT PDB ENTRY 1CGO 2.05 40 10205 497 99 0.192 0.1821 0.252 RANDOM 23
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]
RMS Deviations Key Refinement Restraint Deviation p_transverse_tor 28.7 p_staggered_tor 13.7 p_scangle_it 6.54 p_scbond_it 5.991 p_planar_tor 5.5 p_mcangle_it 3.151 p_mcbond_it 2.813 p_multtor_nbd 0.266 p_xyhbond_nbd 0.203 p_singtor_nbd 0.176
RMS Deviations Key Refinement Restraint Deviation p_transverse_tor 28.7 p_staggered_tor 13.7 p_scangle_it 6.54 p_scbond_it 5.991 p_planar_tor 5.5 p_mcangle_it 3.151 p_mcbond_it 2.813 p_multtor_nbd 0.266 p_xyhbond_nbd 0.203 p_singtor_nbd 0.176 p_chiral_restr 0.134 p_planar_d 0.039 p_angle_d 0.037 p_plane_restr 0.0327 p_bond_d 0.017 p_angle_deg p_hb_or_metal_coord p_xhyhbond_nbd p_orthonormal_tor p_special_tor
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 935 Nucleic Acid Atoms Solvent Atoms 153 Heterogen Atoms 43
Software Software Software Name Purpose REFMAC refinement DENZO data reduction SCALEPACK data scaling AMoRE phasing