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Xenon-bound structure of bifunctional carbon monoxide dehydrogenase/acetyl-CoA synthase(CODH/ACS) from Moorella thermoacetica
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1MJG PDB ENTRY 1MJG
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 6.5 298 8-10% (w/v) polyethylene glycol monomethyl ether 5000, 20% glycerol, 200mM calcium acetate, 100mM PIPES pH 6.5, 2mM dithiothreitol, VAPOR DIFFUSION, SITTING DROP, temperature 298K
Crystal Properties Matthews coefficient Solvent content 2.72 54.8
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 99.54 α = 101.29 b = 136.6 β = 109.22 c = 141.75 γ = 103.91
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 4 2002-12-01 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON SSRL BEAMLINE BL9-1 0.9184 SSRL BL9-1
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 2.51 49 96.1 0.083 10.3 2.1 217468 217468 43.3
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R-Sym I (Observed) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 2.51 2.6 92 0.422 2 2 20805
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 Selection Details Mean Isotropic B X-RAY DIFFRACTION FOURIER SYNTHESIS THROUGHOUT PDB ENTRY 1MJG 2.51 49 203798 10717 96.1 0.182 0.178 0.1792 0.25 RANDOM 31.3
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] -1.03 0.21 -0.63 1.21 -0.59 -0.72
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 40.475 r_dihedral_angle_4_deg 23.256 r_dihedral_angle_3_deg 20.786 r_dihedral_angle_1_deg 7.521 r_scangle_it 4.814 r_scbond_it 3.197 r_angle_refined_deg 2.284 r_mcangle_it 1.908 r_mcbond_it 1.075 r_nbtor_refined 0.33
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 40.475 r_dihedral_angle_4_deg 23.256 r_dihedral_angle_3_deg 20.786 r_dihedral_angle_1_deg 7.521 r_scangle_it 4.814 r_scbond_it 3.197 r_angle_refined_deg 2.284 r_mcangle_it 1.908 r_mcbond_it 1.075 r_nbtor_refined 0.33 r_nbd_refined 0.251 r_symmetry_vdw_refined 0.231 r_metal_ion_refined 0.227 r_symmetry_hbond_refined 0.198 r_xyhbond_nbd_refined 0.171 r_chiral_restr 0.144 r_bond_refined_d 0.026 r_gen_planes_refined 0.009
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 43321 Nucleic Acid Atoms Solvent Atoms 1153 Heterogen Atoms 228
Software Software Software Name Purpose REFMAC refinement PDB_EXTRACT data extraction HKL-2000 data collection HKL-2000 data reduction HKL-2000 data scaling CNS phasing