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Crystal structure of a formyltetrahydrofolate deformylase (NP_949368) from RHODOPSEUDOMONAS PALUSTRIS CGA009 at 1.95 A resolution
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 7 277 20.0% polyethylene glycol 8000, 0.3M calcium acetate, 0.1M sodium cacodylate pH 7.0, NANODROP, VAPOR DIFFUSION, SITTING DROP, temperature 277K
Crystal Properties Matthews coefficient Solvent content 2.76 55.44
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 70.048 α = 90 b = 141.111 β = 107.83 c = 77.563 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 2010-05-13 M MAD
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON SSRL BEAMLINE BL9-2 0.90497,0.97939,0.97915 SSRL BL9-2
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 1.95 29.673 97.2 0.108 6.6 3.5 101081 101081 20.735
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 1.95 2 94.1 0.583 0.583 1.3 3.5 7180
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 1.95 29.673 101028 5035 97.07 0.2358 0.2336 0.2388 0.278 0.2847 RANDOM 30.989
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] 0.62 -0.38 -0.13 -0.72
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 31.699 r_dihedral_angle_4_deg 13.278 r_dihedral_angle_3_deg 11.042 r_dihedral_angle_1_deg 3.944 r_scangle_it 3.359 r_scbond_it 2.033 r_angle_refined_deg 1.663 r_mcangle_it 1.377 r_angle_other_deg 1.281 r_mcbond_it 0.751
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 31.699 r_dihedral_angle_4_deg 13.278 r_dihedral_angle_3_deg 11.042 r_dihedral_angle_1_deg 3.944 r_scangle_it 3.359 r_scbond_it 2.033 r_angle_refined_deg 1.663 r_mcangle_it 1.377 r_angle_other_deg 1.281 r_mcbond_it 0.751 r_mcbond_other 0.167 r_chiral_restr 0.099 r_bond_refined_d 0.016 r_gen_planes_refined 0.006 r_bond_other_d 0.003 r_gen_planes_other 0.002
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 9085 Nucleic Acid Atoms Solvent Atoms 1001 Heterogen Atoms 116
Software Software Software Name Purpose SHELX phasing REFMAC refinement SCALA data scaling PDB_EXTRACT data extraction MOSFLM data reduction SHELXD phasing autoSHARP phasing