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Crystal structure of a formylmethanofuran dehydrogenase subunit e-like protein (dhaf_2992) from desulfitobacterium hafniense dcb-2 at 1.45 A resolution
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP, NANODROP 5.8 277 0.2M MgCl2, 20.0% PEG-3350, No Buffer, pH 5.8, VAPOR DIFFUSION, SITTING DROP, NANODROP, temperature 277K
Crystal Properties Matthews coefficient Solvent content 2.82 56.35
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 46.425 α = 90 b = 84.791 β = 90 c = 100.711 γ = 90
Symmetry Space Group P 21 21 21
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 MARMOSAIC 325 mm CCD Flat collimating mirror, toroid focusing mirror 2006-02-20 M MAD
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON SSRL BEAMLINE BL9-2 0.91837, 0.97905 SSRL BL9-2
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge I (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 1.45 29.894 99.9 0.071 0.071 5.8 7.4 71200 18.1
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R Merge I (Observed) R-Sym I (Observed) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 1.45 1.49 99.9 0.729 0.729 1 4.6
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 (Observed) R-Work (Depositor) R-Work (DCC) R-Free (Depositor) R-Free (DCC) R-Free Selection Details Mean Isotropic B X-RAY DIFFRACTION MAD THROUGHOUT 1.45 27.2 71126 3593 99.86 0.173 0.171 0.1772 0.198 0.2043 RANDOM 27.137
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] 2.49 -1.5 -0.99
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 38.092 r_dihedral_angle_4_deg 14.776 r_dihedral_angle_3_deg 12.204 r_dihedral_angle_1_deg 5.829 r_scangle_it 5.661 r_scbond_it 4.323 r_mcangle_it 2.66 r_mcbond_it 1.864 r_angle_refined_deg 1.546 r_angle_other_deg 0.807
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 38.092 r_dihedral_angle_4_deg 14.776 r_dihedral_angle_3_deg 12.204 r_dihedral_angle_1_deg 5.829 r_scangle_it 5.661 r_scbond_it 4.323 r_mcangle_it 2.66 r_mcbond_it 1.864 r_angle_refined_deg 1.546 r_angle_other_deg 0.807 r_mcbond_other 0.503 r_nbd_refined 0.21 r_nbtor_refined 0.182 r_symmetry_vdw_other 0.177 r_nbd_other 0.176 r_xyhbond_nbd_refined 0.158 r_metal_ion_refined 0.126 r_symmetry_hbond_refined 0.126 r_chiral_restr 0.088 r_nbtor_other 0.086 r_symmetry_vdw_refined 0.072 r_bond_refined_d 0.017 r_gen_planes_refined 0.007 r_bond_other_d 0.002 r_gen_planes_other 0.002
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 2335 Nucleic Acid Atoms Solvent Atoms 428 Heterogen Atoms 76
Software Software Software Name Purpose REFMAC refinement SCALA data scaling PDB_EXTRACT data extraction MOSFLM data reduction CCP4 data scaling SOLVE phasing