☰ Navigation Tabs
Crystal structure of a putative formylmethanofuran dehydrogenase subunit e (ta1109) from thermoplasma acidophilum at 1.87 A resolution
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION,SITTING DROP,NANODROP 6 277 10.0% PEG-8000, 0.2M Zn(OAc)2, 0.1M MES pH 6.0, VAPOR DIFFUSION,SITTING DROP,NANODROP, temperature 277K 2 VAPOR DIFFUSION,SITTING DROP,NANODROP 6 277 0.2M MgNO3, 20.0% PEG-3350, No Buffer pH 5.8, pH 6.0, VAPOR DIFFUSION,SITTING DROP,NANODROP, temperature 277K
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 78.68 α = 90 b = 97.65 β = 90 c = 75.27 γ = 90
Symmetry Space Group I 2 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 ADSC QUANTUM 315 Flat mirror (vertical focusing) 2006-03-19 M SINGLE WAVELENGTH 2 2 x-ray 100 CCD MARMOSAIC 325 mm CCD Flat collimating mirror, toroid focusing mirror 2006-03-12 M MAD
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON SSRL BEAMLINE BL11-1 1.000001 SSRL BL11-1 2 SYNCHROTRON SSRL BEAMLINE BL9-2 0.97918, 0.91837, 0.97903 SSRL BL9-2
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 1.87 30.08 99.5 0.114 8.38 4.05 24246 28.07
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 1.87 1.94 99.5 99.5 0.698 1.27
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Resolution (High) Resolution (Low) 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 MAD, MOLECULAR REPLACEMENT THROUGHOUT 1.87 30.08 24246 1229 99.66 0.191 0.19109 0.19 0.1965 0.217 0.2256 RANDOM 31.123
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] 0.56 0.9 -1.46
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 29.197 r_dihedral_angle_3_deg 10.225 r_dihedral_angle_4_deg 9.874 r_scangle_it 5.003 r_scbond_it 3.861 r_dihedral_angle_1_deg 3.609 r_mcangle_it 2.323 r_angle_refined_deg 1.644 r_mcbond_it 1.53 r_angle_other_deg 1.131
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 29.197 r_dihedral_angle_3_deg 10.225 r_dihedral_angle_4_deg 9.874 r_scangle_it 5.003 r_scbond_it 3.861 r_dihedral_angle_1_deg 3.609 r_mcangle_it 2.323 r_angle_refined_deg 1.644 r_mcbond_it 1.53 r_angle_other_deg 1.131 r_mcbond_other 0.328 r_symmetry_hbond_refined 0.22 r_nbd_refined 0.179 r_nbtor_refined 0.177 r_xyhbond_nbd_refined 0.153 r_metal_ion_refined 0.144 r_symmetry_vdw_other 0.141 r_symmetry_vdw_refined 0.14 r_nbd_other 0.125 r_chiral_restr 0.097 r_symmetry_metal_ion_refined 0.09 r_nbtor_other 0.081 r_bond_refined_d 0.014 r_gen_planes_refined 0.005 r_bond_other_d 0.003 r_gen_planes_other 0.002
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 1582 Nucleic Acid Atoms Solvent Atoms 129 Heterogen Atoms 68
Software Software Software Name Purpose REFMAC refinement XSCALE data scaling PDB_EXTRACT data extraction XDS data reduction SHELXD phasing autoSHARP phasing PHASER phasing