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Crystal structure of enolase Spea_3858 (target EFI-500646) from Shewanella pealeana with magnesium bound
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 3MQT PDB ENTRY 3MQT
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 7.5 294 0.1M HEPES, 200MM MAGNESIUM CHLORIDE, 25% PEG3350, pH 7.5, VAPOR DIFFUSION, SITTING DROP, temperature 294K
Crystal Properties Matthews coefficient Solvent content 2.55 51.78
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 109.207 α = 90 b = 109.207 β = 90 c = 141.034 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 90 CCD ADSC QUANTUM 315 MIRRORS 2011-06-16 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON NSLS BEAMLINE X29A NSLS X29A
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 1.8 50 99.8 0.079 9.4 8.3 76116 -5 28.112
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 1.8 1.83 100 0.87 1.5 8.1
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Starting model 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 MR THROUGHOUT PDB ENTRY 3MQT 1.9 50 62688 1981 99.55 0.16076 0.16026 0.1598 0.17602 0.175 RANDOM 45.454
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] -21.05 -21.05 42.1
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 37.191 r_dihedral_angle_3_deg 15.661 r_dihedral_angle_4_deg 11.757 r_scangle_it 10.995 r_scbond_it 8.292 r_mcangle_it 5.994 r_dihedral_angle_1_deg 5.656 r_mcbond_it 4.33 r_angle_refined_deg 1.249 r_chiral_restr 0.089
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 37.191 r_dihedral_angle_3_deg 15.661 r_dihedral_angle_4_deg 11.757 r_scangle_it 10.995 r_scbond_it 8.292 r_mcangle_it 5.994 r_dihedral_angle_1_deg 5.656 r_mcbond_it 4.33 r_angle_refined_deg 1.249 r_chiral_restr 0.089 r_bond_refined_d 0.01 r_gen_planes_refined 0.005 r_bond_other_d r_angle_other_deg r_gen_planes_other r_nbd_refined r_nbd_other r_nbtor_refined r_nbtor_other r_xyhbond_nbd_refined r_xyhbond_nbd_other r_metal_ion_refined r_metal_ion_other r_symmetry_vdw_refined r_symmetry_vdw_other r_symmetry_hbond_refined r_symmetry_hbond_other r_symmetry_metal_ion_refined r_symmetry_metal_ion_other r_mcbond_other r_rigid_bond_restr r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 5768 Nucleic Acid Atoms Solvent Atoms 250 Heterogen Atoms 20
Software Software Software Name Purpose PHASER phasing REFMAC refinement HKL-2000 data reduction HKL-2000 data scaling