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Crystal structure of the R236A ETF mutant from M. methylotrophus
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1O97
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 6.2 limited digest with trypsin, 2.0 M sodium phosphate, pH 6.2, VAPOR DIFFUSION, SITTING DROP
Crystal Properties Matthews coefficient Solvent content 2.67 53.9
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 117.009 α = 90 b = 117.009 β = 90 c = 84.513 γ = 120
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 210 2005-04-01 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON ESRF BEAMLINE ID14-1 ESRF ID14-1
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (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 1.9 20 99.8 0.074 8.6 5.8 49299 49299
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 FOURIER SYNTHESIS THROUGHOUT 1O97 1.9 20 49299 2610 99.76 0.14947 0.14775 0.1578 0.18169 0.1902 RANDOM 22.436
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] 0.33 0.17 0.33 -0.5
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 35.996 r_dihedral_angle_4_deg 20.314 r_dihedral_angle_3_deg 13.963 r_dihedral_angle_1_deg 6.38 r_scangle_it 3.349 r_scbond_it 2.232 r_angle_refined_deg 1.557 r_mcangle_it 1.253 r_mcbond_it 0.933 r_angle_other_deg 0.842
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 35.996 r_dihedral_angle_4_deg 20.314 r_dihedral_angle_3_deg 13.963 r_dihedral_angle_1_deg 6.38 r_scangle_it 3.349 r_scbond_it 2.232 r_angle_refined_deg 1.557 r_mcangle_it 1.253 r_mcbond_it 0.933 r_angle_other_deg 0.842 r_symmetry_vdw_refined 0.695 r_symmetry_hbond_refined 0.335 r_symmetry_vdw_other 0.244 r_mcbond_other 0.234 r_nbd_refined 0.216 r_nbd_other 0.188 r_nbtor_refined 0.174 r_xyhbond_nbd_refined 0.165 r_chiral_restr 0.089 r_nbtor_other 0.088 r_bond_refined_d 0.014 r_gen_planes_refined 0.006 r_bond_other_d 0.002 r_gen_planes_other 0.001 r_xyhbond_nbd_other r_metal_ion_refined r_metal_ion_other r_symmetry_hbond_other r_symmetry_metal_ion_refined r_symmetry_metal_ion_other r_rigid_bond_restr r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 4252 Nucleic Acid Atoms Solvent Atoms 731 Heterogen Atoms 81
Software Software Software Name Purpose REFMAC refinement HKL-2000 data collection DENZO data reduction SCALEPACK data scaling