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Crystal structure of Drosophila melanogaster Translin protein
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 2QRX
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 5.6 283 10% PEG 4000, 10% isopropanol, 5% glycerol, 100mM sodium citrate buffer, pH 5.6, VAPOR DIFFUSION, HANGING DROP, temperature 283K
Crystal Properties Matthews coefficient Solvent content 3.21 61.68
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 98.58 α = 90 b = 96.62 β = 90 c = 153.41 γ = 90
Symmetry Space Group P 2 2 21
Diffraction Diffraction Experiment ID # Crystal ID Scattering Type Data Collection Temperature Detector Detector Type Details Collection Date Monochromator Protocol 1 1 x-ray 293 IMAGE PLATE MAR scanner 345 mm plate Osmic mirror 2004-06-25 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 ROTATING ANODE RIGAKU RU200 1.5418
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 3.4 20 91.4 0.099 11.8 3.2 18817 18817 73.2
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) 3.4 3.58 77.3 0.354 2.6 2.3 2268
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 (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 2QRX 3.4 20 18803 18802 950 90.95 0.207 0.203 0.1882 0.269 0.253 RANDOM 42.712
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] 3.99 -1.86 -2.13
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 34.979 r_dihedral_angle_3_deg 21.764 r_dihedral_angle_4_deg 14.636 r_dihedral_angle_1_deg 5.814 r_scangle_it 2.783 r_angle_refined_deg 1.583 r_scbond_it 1.542 r_mcangle_it 1.15 r_mcbond_it 0.63 r_nbtor_refined 0.322
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 34.979 r_dihedral_angle_3_deg 21.764 r_dihedral_angle_4_deg 14.636 r_dihedral_angle_1_deg 5.814 r_scangle_it 2.783 r_angle_refined_deg 1.583 r_scbond_it 1.542 r_mcangle_it 1.15 r_mcbond_it 0.63 r_nbtor_refined 0.322 r_symmetry_vdw_refined 0.276 r_nbd_refined 0.247 r_xyhbond_nbd_refined 0.146 r_chiral_restr 0.105 r_symmetry_hbond_refined 0.056 r_bond_refined_d 0.015 r_gen_planes_refined 0.005
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 5925 Nucleic Acid Atoms Solvent Atoms Heterogen Atoms
Software Software Software Name Purpose REFMAC refinement MAR345dtb data collection MOSFLM data reduction SCALA data scaling AMoRE phasing