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Crystal structure of Septin 2 in complex with GppNHp and Mg2+
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 2QA5 PDB entry 2QA5
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 7.5 298 1.2M Potassium Acetate, 0.1M HEPES pH 7.5, VAPOR DIFFUSION, HANGING DROP, temperature 298K
Crystal Properties Matthews coefficient Solvent content 2.94 58.1
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 65.98 α = 90 b = 118.44 β = 90 c = 190.82 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 100 CCD MARMOSAIC 225 mm CCD 2007-01-25 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON SLS BEAMLINE X06SA 0.97906 SLS X06SA
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge I (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 2.9 20 0.078 0.061 4.8 33762
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R Merge I (Observed) R-Sym I (Observed) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 2.9 2.974 0.366 0.371 4.81 4.8 3240
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-Free (Depositor) R-Free (DCC) R-Free Selection Details Mean Isotropic B X-RAY DIFFRACTION MOLECULAR REPLACEMENT THROUGHOUT PDB entry 2QA5 2.9 19.97 33760 1689 100 0.249 0.247 0.29 0.2893 RANDOM 31.273
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] 2.1 -2.08 -0.02
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 37.694 r_dihedral_angle_3_deg 20.871 r_dihedral_angle_4_deg 20.266 r_dihedral_angle_1_deg 5.369 r_scangle_it 1.449 r_angle_refined_deg 1.224 r_mcangle_it 0.921 r_scbond_it 0.835 r_mcbond_it 0.519 r_nbtor_refined 0.312
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 37.694 r_dihedral_angle_3_deg 20.871 r_dihedral_angle_4_deg 20.266 r_dihedral_angle_1_deg 5.369 r_scangle_it 1.449 r_angle_refined_deg 1.224 r_mcangle_it 0.921 r_scbond_it 0.835 r_mcbond_it 0.519 r_nbtor_refined 0.312 r_nbd_refined 0.218 r_symmetry_vdw_refined 0.218 r_symmetry_hbond_refined 0.167 r_xyhbond_nbd_refined 0.161 r_chiral_restr 0.078 r_metal_ion_refined 0.07 r_bond_refined_d 0.009 r_gen_planes_refined 0.006
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 8147 Nucleic Acid Atoms Solvent Atoms 103 Heterogen Atoms 132
Software Software Software Name Purpose XSCALE data scaling MOLREP phasing REFMAC refinement PDB_EXTRACT data extraction MAR345dtb data collection