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Crystal Structure and Functional Analysis of Drosophila Wind-- a PDI-Related Protein
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 6.1 293 mixing 6ul [5.8mg/ml Wind in 5mM HEPES pH7.5, 25mM NaCl, 0.0025%(V/V) beta-mercaptoethanol] with 3ul [0.1M MES pH6.1, 0.1M CsCl, 2mM CaCl2, 16%(V/V) PEG 300] cryo-condition: 0.1M Mes pH6.1, 20%(V/V) PEG 300, 10%(V/V)glycerol, 0.1M CsCl, 2mM CaCl2, VAPOR DIFFUSION, HANGING DROP, temperature 293K
Crystal Properties Matthews coefficient Solvent content 2.1 42.1
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 106.678 α = 90 b = 50.358 β = 112.84 c = 98.616 γ = 90
Symmetry Space Group C 1 2 1
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 MARRESEARCH bent mirror 2002-07-31 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON EMBL/DESY, HAMBURG BEAMLINE X11 0.811 EMBL/DESY, HAMBURG X11
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 1.9 37.64 99.8 0.0565 13.96 4.5 38218 38218 -3 49.18
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R-Sym I (Observed) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1.9 2 99.6 0.2759 4.77 3.79 5373
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-Free (Depositor) R-Free (DCC) R-Free Selection Details Mean Isotropic B X-RAY DIFFRACTION SIRAS THROUGHOUT NONE 1.9 35.17 38216 38216 1859 99.8 0.2179 0.2179 0.21584 0.25571 0.2962 5%,THIN SHELLS 37.247
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] 0.37 -0.42 -0.56 -0.13
RMS Deviations Key Refinement Restraint Deviation r_scangle_it 8.304 r_dihedral_angle_1_deg 6.619 r_scbond_it 5.91 r_mcangle_it 4.579 r_mcbond_it 2.921 r_angle_refined_deg 2.132 r_nbd_refined 0.237 r_symmetry_hbond_refined 0.23 r_symmetry_vdw_refined 0.202 r_xyhbond_nbd_refined 0.159
RMS Deviations Key Refinement Restraint Deviation r_scangle_it 8.304 r_dihedral_angle_1_deg 6.619 r_scbond_it 5.91 r_mcangle_it 4.579 r_mcbond_it 2.921 r_angle_refined_deg 2.132 r_nbd_refined 0.237 r_symmetry_hbond_refined 0.23 r_symmetry_vdw_refined 0.202 r_xyhbond_nbd_refined 0.159 r_chiral_restr 0.156 r_bond_refined_d 0.023 r_gen_planes_refined 0.01
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 3295 Nucleic Acid Atoms Solvent Atoms 152 Heterogen Atoms 1
Software Software Software Name Purpose REFMAC refinement MAR345 data collection SCALEPACK data scaling XPREP data reduction CCP4 data scaling SHELXD phasing SHELXE model building