☰ Navigation Tabs
RECOMBINANT NATIVE CYTOCHROME C PRIME FROM ALCALIGENES XYLOSOXIDANS: CARBON MONOOXIDE BOUND AT 1.25 A
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 2YKZ PDB ENTRY 2YKZ
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 7.5 AMMONIUM SULPHATE, TRIS PH 7.5 .
Crystal Properties Matthews coefficient Solvent content 2.7 55
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 53.914 α = 90 b = 53.914 β = 90 c = 180.864 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 CCD MARRESEARCH MIRROR 2008-09-12 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON SRS BEAMLINE PX10.1 SRS PX10.1
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 1.25 36 97.8 0.08 22 6.6 40961 11.9
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 1.25 1.29 81.2 0.19 3.5 4.2
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-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 PDB ENTRY 2YKZ 1.25 46.68 40961 2172 97.63 0.1626 0.16117 0.156 0.19 0.1838 RANDOM 19.463
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] -0.54 -0.27 -0.54 0.81
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 32.113 r_dihedral_angle_4_deg 25.427 r_dihedral_angle_3_deg 14.667 r_scangle_it 6.219 r_dihedral_angle_1_deg 4.634 r_scbond_it 4.215 r_mcangle_it 3.247 r_mcbond_it 2.289 r_angle_refined_deg 2.09 r_rigid_bond_restr 1.479
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 32.113 r_dihedral_angle_4_deg 25.427 r_dihedral_angle_3_deg 14.667 r_scangle_it 6.219 r_dihedral_angle_1_deg 4.634 r_scbond_it 4.215 r_mcangle_it 3.247 r_mcbond_it 2.289 r_angle_refined_deg 2.09 r_rigid_bond_restr 1.479 r_angle_other_deg 0.954 r_mcbond_other 0.696 r_chiral_restr 0.127 r_bond_refined_d 0.019 r_gen_planes_refined 0.009 r_bond_other_d 0.001 r_gen_planes_other 0.001 r_nbd_refined r_nbd_other r_nbtor_refined r_nbtor_other r_xyhbond_nbd_refined r_xyhbond_nbd_other r_metal_ion_refined r_metal_ion_other r_symmetry_vdw_refined r_symmetry_vdw_other r_symmetry_hbond_refined r_symmetry_hbond_other r_symmetry_metal_ion_refined r_symmetry_metal_ion_other r_mcangle_other r_scbond_other r_scangle_other r_long_range_B_refined r_long_range_B_other r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 949 Nucleic Acid Atoms Solvent Atoms 253 Heterogen Atoms 67
Software Software Software Name Purpose REFMAC refinement HKL-2000 data reduction SCALEPACK data scaling MOLREP phasing