☰ Navigation Tabs
Crystal structure of yeast Fis1 complexed with a fragment of yeast Mdv1
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1Y8M PDB entry 1Y8M
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 8 295 20% PEG3350, 0.1M Tris, pH 8.0, VAPOR DIFFUSION, HANGING DROP, temperature 295K
Crystal Properties Matthews coefficient Solvent content 2.05 40.09
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 43.172 α = 90 b = 57.388 β = 90 c = 69.804 γ = 90
Symmetry Space Group P 21 21 2
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 MARMOSAIC 325 mm CCD Flat collimating mirror, double crystal monochromator, toroid focusing mirror 2006-04-12 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON SSRL BEAMLINE BL9-2 SSRL BL9-2
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 2.15 50 98.6 0.063 13 5.7 9834
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 2.15 2.23 89.5 0.359 4.3
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 1Y8M 2.15 29.81 8653 765 95.99 0.20062 0.19769 0.1965 0.23306 0.2327 RANDOM 43.17
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] 1.96 -1.76 -0.2
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 34.311 r_dihedral_angle_4_deg 24.449 r_dihedral_angle_3_deg 17.664 r_dihedral_angle_1_deg 5.845 r_scangle_it 3.176 r_scbond_it 2.056 r_angle_refined_deg 1.495 r_mcangle_it 1.336 r_mcbond_it 0.822 r_nbtor_refined 0.306
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 34.311 r_dihedral_angle_4_deg 24.449 r_dihedral_angle_3_deg 17.664 r_dihedral_angle_1_deg 5.845 r_scangle_it 3.176 r_scbond_it 2.056 r_angle_refined_deg 1.495 r_mcangle_it 1.336 r_mcbond_it 0.822 r_nbtor_refined 0.306 r_nbd_refined 0.215 r_symmetry_hbond_refined 0.172 r_xyhbond_nbd_refined 0.168 r_symmetry_vdw_refined 0.13 r_chiral_restr 0.096 r_bond_refined_d 0.016 r_gen_planes_refined 0.006 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 1185 Nucleic Acid Atoms Solvent Atoms 41 Heterogen Atoms
Software Software Software Name Purpose REFMAC refinement SCALEPACK data scaling CNS refinement DENZO data reduction PDB_EXTRACT data extraction Blu-Ice data collection HKL-2000 data reduction CNS phasing