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Crystal Structure of Epiphyas postvittana Takeout 1
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 3E8T PDB ENTRY 3E8T
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION 6.5 291 50mM MES pH 6.2-6.7, 20-25% PEG 3000, pH 6.5, VAPOR DIFFUSION, temperature 291K
Crystal Properties Matthews coefficient Solvent content 2.08 40.73
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 45.043 α = 90 b = 54.051 β = 90 c = 83.577 γ = 90
Symmetry Space Group P 21 21 21
Diffraction Diffraction Experiment ID # Crystal ID Scattering Type Data Collection Temperature Detector Detector Type Details Collection Date Monochromator Protocol 1 1 x-ray 100 IMAGE PLATE MAR scanner 345 mm plate 2007-08-30 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 ROTATING ANODE RIGAKU MICROMAX-007 1.5418
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge I (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 2.5 34.6 99.9 0.11 0.11 11.3 7491 39.7
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 2.5 2.64 99.8 0.389 0.389 2 11.4 1055
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 MOLECULAR REPLACEMENT THROUGHOUT PDB ENTRY 3E8T 2.5 33.06 7458 344 99.85 0.187 0.183 0.1859 0.26 0.2599 RANDOM 19.626
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] 1.19 -0.36 -0.83
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 37.942 r_dihedral_angle_3_deg 14.401 r_dihedral_angle_4_deg 10.907 r_dihedral_angle_1_deg 6.748 r_scangle_it 2.378 r_scbond_it 1.619 r_angle_refined_deg 1.408 r_mcangle_it 0.936 r_angle_other_deg 0.839 r_mcbond_it 0.833
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 37.942 r_dihedral_angle_3_deg 14.401 r_dihedral_angle_4_deg 10.907 r_dihedral_angle_1_deg 6.748 r_scangle_it 2.378 r_scbond_it 1.619 r_angle_refined_deg 1.408 r_mcangle_it 0.936 r_angle_other_deg 0.839 r_mcbond_it 0.833 r_nbd_refined 0.208 r_symmetry_hbond_refined 0.185 r_nbtor_refined 0.177 r_nbd_other 0.174 r_symmetry_vdw_other 0.161 r_xyhbond_nbd_refined 0.138 r_symmetry_vdw_refined 0.132 r_mcbond_other 0.108 r_nbtor_other 0.087 r_chiral_restr 0.074 r_bond_refined_d 0.013 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 1719 Nucleic Acid Atoms Solvent Atoms 83 Heterogen Atoms 53
Software Software Software Name Purpose MOSFLM data reduction SCALA data scaling PHASER phasing REFMAC refinement PDB_EXTRACT data extraction MAR345dtb data collection