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Crystal structure of yeast Fis1 complexed with a fragment of yeast Caf4
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 2PQN PDB ID 2PQN
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 295 16% PEG3350, 0.2 M NaH2PO4, VAPOR DIFFUSION, HANGING DROP, temperature 295K
Crystal Properties Matthews coefficient Solvent content 2.04 39.56
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 60.408 α = 90 b = 46.948 β = 99.21 c = 64.468 γ = 90
Symmetry Space Group P 1 21 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 ADSC QUANTUM 315 Vertical focusing mirror; single crystal Si(311) bent monochromator (horizontal focusing) 2006-08-02 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON SSRL BEAMLINE BL9-1 SSRL BL9-1
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 1.9 40.4 99.3 0.073 12.9 3.7 56106
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 1.9 1.97 98.3 0.424 3.4 5584
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 (All) 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 ID 2PQN 1.88 40.4 27376 1333 92.86 0.209 0.209 0.208 0.2071 0.241 0.2407 RANDOM 35.011
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] 0.79 -0.07 -0.7 -0.11
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 37.78 r_dihedral_angle_4_deg 24.706 r_dihedral_angle_3_deg 16.181 r_dihedral_angle_1_deg 6.25 r_scangle_it 2.978 r_scbond_it 2.022 r_angle_refined_deg 1.496 r_mcangle_it 1.226 r_mcbond_it 0.824 r_nbtor_refined 0.308
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 37.78 r_dihedral_angle_4_deg 24.706 r_dihedral_angle_3_deg 16.181 r_dihedral_angle_1_deg 6.25 r_scangle_it 2.978 r_scbond_it 2.022 r_angle_refined_deg 1.496 r_mcangle_it 1.226 r_mcbond_it 0.824 r_nbtor_refined 0.308 r_nbd_refined 0.212 r_symmetry_vdw_refined 0.207 r_xyhbond_nbd_refined 0.166 r_symmetry_hbond_refined 0.127 r_chiral_restr 0.113 r_bond_refined_d 0.016 r_gen_planes_refined 0.006
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 2508 Nucleic Acid Atoms Solvent Atoms 141 Heterogen Atoms 2
Software Software Software Name Purpose DENZO data reduction SCALEPACK data scaling MOLREP phasing REFMAC refinement PDB_EXTRACT data extraction Blu-Ice data collection HKL-2000 data reduction