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Crystal structure of the dimerization domain of doublesex protein from D. melanogaster
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 7.4 298 ammonium sulfate, isopropanol, tris, sodium chloride , pH 7.4, VAPOR DIFFUSION, HANGING DROP, temperature 298K
Crystal Properties Matthews coefficient Solvent content 1.787 28.53
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 39.773 α = 90 b = 46.623 β = 90 c = 59.771 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 200 CCD ADSC QUANTUM 4 2003-04-11 M SINGLE WAVELENGTH 2 1 x-ray CCD ADSC QUANTUM 4 2002-11-26 M
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON NSLS BEAMLINE X9B 0.9788 NSLS X9B 2 SYNCHROTRON APS BEAMLINE 14-BM-C 0.90000 APS 14-BM-C
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 1.6 20 0.038 62.3 10.9 15159 15159 -3
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) 1.6 1.66 96.9 0.182 11
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 Selection Details Mean Isotropic B X-RAY DIFFRACTION SAD THROUGHOUT 1.6 10.86 14844 14294 752 99.21 0.21084 0.2085 0.2078 0.25722 RANDOM 27.969
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] -0.01 0.01
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 32.613 r_dihedral_angle_4_deg 16.551 r_dihedral_angle_3_deg 13.672 r_scangle_it 3.98 r_dihedral_angle_1_deg 3.88 r_scbond_it 2.775 r_mcangle_it 2.19 r_angle_refined_deg 1.394 r_mcbond_it 1.319 r_nbtor_refined 0.322
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 32.613 r_dihedral_angle_4_deg 16.551 r_dihedral_angle_3_deg 13.672 r_scangle_it 3.98 r_dihedral_angle_1_deg 3.88 r_scbond_it 2.775 r_mcangle_it 2.19 r_angle_refined_deg 1.394 r_mcbond_it 1.319 r_nbtor_refined 0.322 r_xyhbond_nbd_refined 0.29 r_nbd_refined 0.24 r_symmetry_vdw_refined 0.225 r_symmetry_hbond_refined 0.214 r_chiral_restr 0.092 r_bond_refined_d 0.013 r_gen_planes_refined 0.007 r_bond_other_d r_angle_other_deg r_gen_planes_other r_nbd_other r_nbtor_other r_xyhbond_nbd_other r_metal_ion_refined r_metal_ion_other r_symmetry_vdw_other 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 994 Nucleic Acid Atoms Solvent Atoms 126 Heterogen Atoms
Software Software Software Name Purpose REFMAC refinement HKL-2000 data reduction SCALEPACK data scaling SHELXS phasing CNS refinement