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Crystal structure of Formyltetrahydrofolate deformylase (YP_105254.1) from BURKHOLDERIA MALLEI ATCC 23344 at 1.90 A resolution
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 8 277 0.2000M Li2SO4, 10.0000% PEG-3000, 0.1M Imidazole pH 8.0, NANODROP, VAPOR DIFFUSION, SITTING DROP, temperature 277K
Crystal Properties Matthews coefficient Solvent content 2.59 52.43
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 74.628 α = 90 b = 93.476 β = 95.29 c = 98.802 γ = 90
Symmetry Space Group P 1 21 1
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 2009-07-31 M MAD
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON SSRL BEAMLINE BL9-2 0.91837,0.97922 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 1.9 29.488 98 0.069 7.73 105637 -3 25.053
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 1.9 1.97 95.8 0.554 1.5
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 1.9 29.488 105611 5276 99.34 0.187 0.185 0.2007 0.221 0.2308 RANDOM 26.272
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] -1.01 -0.1 0.88 0.11
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 29.863 r_dihedral_angle_4_deg 12.381 r_dihedral_angle_3_deg 10.341 r_scangle_it 4.529 r_dihedral_angle_1_deg 4.254 r_scbond_it 3.038 r_mcangle_it 1.923 r_angle_refined_deg 1.31 r_mcbond_it 1.056 r_angle_other_deg 0.781
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 29.863 r_dihedral_angle_4_deg 12.381 r_dihedral_angle_3_deg 10.341 r_scangle_it 4.529 r_dihedral_angle_1_deg 4.254 r_scbond_it 3.038 r_mcangle_it 1.923 r_angle_refined_deg 1.31 r_mcbond_it 1.056 r_angle_other_deg 0.781 r_mcbond_other 0.29 r_chiral_restr 0.069 r_bond_refined_d 0.016 r_gen_planes_refined 0.007 r_bond_other_d 0.002 r_gen_planes_other 0.001
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 8875 Nucleic Acid Atoms Solvent Atoms 869 Heterogen Atoms 206
Software Software Software Name Purpose REFMAC refinement PHENIX refinement SHELX phasing MolProbity model building XSCALE data scaling PDB_EXTRACT data extraction XDS data reduction SHELXD phasing autoSHARP phasing