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Crystal Structure of the ECH2 decarboxylase domain of CurF from Lyngbya majuscula
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 7.15 277.15 1.5M sodium malonate pH 7.0, 50 mM HEPES pH 6.8, 20 mM Tris pH 7.9, 500 mM NaCl, 10% glycerol, pH 7.15, VAPOR DIFFUSION, HANGING DROP, temperature 277.15K
Crystal Properties Matthews coefficient Solvent content 2.74 55.13
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 105.433 α = 90 b = 105.433 β = 90 c = 46.314 γ = 120
Symmetry Space Group P 3 2 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 300 mm CCD K-B pair of biomorph mirrors for vertical and horizontal focusing 2006-08-16 M MAD 2 1 3 1
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON APS BEAMLINE 23-ID-B 1.0332,0.97942,0.97956,0.95373 APS 23-ID-B
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 50 99.9 0.063 13.4 11 20390 20390 1 1 33.2
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 2.07 100 0.682 3.6 10.4 2020
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Resolution (High) Resolution (Low) Number Reflections (All) 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 2 41.31 21970 20378 1024 99.91 0.204 0.202 0.2047 0.25 0.2491 RANDOM 37.711
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] 0.37 0.18 0.37 -0.55
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 36.897 r_dihedral_angle_3_deg 15.587 r_dihedral_angle_4_deg 12.505 r_scangle_it 6.292 r_dihedral_angle_1_deg 5.327 r_scbond_it 4.054 r_mcangle_it 1.782 r_angle_refined_deg 1.245 r_mcbond_it 1.037 r_nbtor_refined 0.303
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 36.897 r_dihedral_angle_3_deg 15.587 r_dihedral_angle_4_deg 12.505 r_scangle_it 6.292 r_dihedral_angle_1_deg 5.327 r_scbond_it 4.054 r_mcangle_it 1.782 r_angle_refined_deg 1.245 r_mcbond_it 1.037 r_nbtor_refined 0.303 r_nbd_refined 0.202 r_symmetry_vdw_refined 0.188 r_symmetry_hbond_refined 0.154 r_xyhbond_nbd_refined 0.145 r_chiral_restr 0.088 r_bond_refined_d 0.011 r_gen_planes_refined 0.004
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 1887 Nucleic Acid Atoms Solvent Atoms 145 Heterogen Atoms 12
Software Software Software Name Purpose DENZO data reduction SCALEPACK data scaling SOLVE phasing RESOLVE phasing REFMAC refinement PDB_EXTRACT data extraction Blu-Ice data collection HKL-2000 data reduction