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2.75 Angstrom Crystal Structure of Enolase 1 from Toxoplasma gondii
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 2PA6
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 6 295 Protein: 7.0 mG/mL, 0.25 Sodium cloride, 0.01M Tris-HCl pH 8.3; Screen: PACT (D3), 0.1M MMT buffer pH 6.0, 25% (w/v) PEG 1500, VAPOR DIFFUSION, SITTING DROP, temperature 295K
Crystal Properties Matthews coefficient Solvent content 2.94 58.23
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 323.632 α = 90 b = 323.632 β = 90 c = 66.773 γ = 90
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 Si {1,1,1} 2010-08-19 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON APS BEAMLINE 21-ID-D 1.07809 APS 21-ID-D
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 2.75 30 100 0.113 11.6 4 90781 90781 -3 58.4
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 2.75 2.8 100 0.543 2.6 4 4489
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Starting model Resolution (High) Resolution (Low) Number Reflections (All) 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 MOLECULAR REPLACEMENT THROUGHOUT 2PA6 2.75 29.55 86109 86109 4548 99.98 0.17325 0.17325 0.17084 0.1755 0.21881 0.2214 RANDOM 37.595
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] 0.27 0.27 -0.55
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 23.201 r_dihedral_angle_4_deg 9.374 r_dihedral_angle_3_deg 7.179 r_scangle_it 3.712 r_scbond_it 2.198 r_dihedral_angle_1_deg 1.326 r_angle_refined_deg 1.315 r_mcangle_it 1.264 r_angle_other_deg 0.845 r_mcbond_it 0.628
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 23.201 r_dihedral_angle_4_deg 9.374 r_dihedral_angle_3_deg 7.179 r_scangle_it 3.712 r_scbond_it 2.198 r_dihedral_angle_1_deg 1.326 r_angle_refined_deg 1.315 r_mcangle_it 1.264 r_angle_other_deg 0.845 r_mcbond_it 0.628 r_mcbond_other 0.12 r_chiral_restr 0.08 r_bond_refined_d 0.007 r_gen_planes_refined 0.004 r_bond_other_d 0.001 r_gen_planes_other 0.001
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 20313 Nucleic Acid Atoms Solvent Atoms 578 Heterogen Atoms 6
Software Software Software Name Purpose Blu-Ice data collection BALBES phasing REFMAC refinement HKL-3000 data reduction HKL-3000 data scaling