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Crystal structure of the UHM domain of human SPF45 (free form)
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1O0P UHM domain homology model based on PDB-ID 1o0p
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 8.5 293 22% PEG 3,350, 0.2 M MgCl2, 0.1 M Tris pH 8.5, VAPOR DIFFUSION, HANGING DROP, temperature 293K
Crystal Properties Matthews coefficient Solvent content 3.05 59.71
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 63.9 α = 90 b = 90.2 β = 90 c = 99.1 γ = 90
Symmetry Space Group F 2 2 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 ADSC QUANTUM 210 2005-09-01 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON ESRF BEAMLINE ID14-1 0.976 ESRF ID14-1
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 15 99.5 0.057 0.053 20.13 7.57 9819 9819 -3 -3 46.5
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) 1 2 2.05 100 0.474 0.44 4.67 7.2 719
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Starting model Resolution (High) Resolution (Low) Cut-off Sigma (I) Cut-off Sigma (F) 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 Selection Details Mean Isotropic B X-RAY DIFFRACTION MOLECULAR REPLACEMENT THROUGHOUT UHM domain homology model based on PDB-ID 1o0p 2 19.58 -3 -3 9294 9294 488 100 0.23204 0.23204 0.23143 0.24348 RANDOM 46.965
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] 3.65 -0.39 -3.27
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 36.964 r_dihedral_angle_4_deg 20.04 r_dihedral_angle_3_deg 15.499 r_dihedral_angle_1_deg 5.614 r_scangle_it 1.912 r_scbond_it 1.391 r_angle_refined_deg 1.236 r_angle_other_deg 0.882 r_mcangle_it 0.818 r_mcbond_it 0.72
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 36.964 r_dihedral_angle_4_deg 20.04 r_dihedral_angle_3_deg 15.499 r_dihedral_angle_1_deg 5.614 r_scangle_it 1.912 r_scbond_it 1.391 r_angle_refined_deg 1.236 r_angle_other_deg 0.882 r_mcangle_it 0.818 r_mcbond_it 0.72 r_symmetry_vdw_other 0.282 r_nbd_refined 0.196 r_nbd_other 0.186 r_xyhbond_nbd_refined 0.176 r_nbtor_refined 0.168 r_mcbond_other 0.118 r_symmetry_vdw_refined 0.102 r_nbtor_other 0.081 r_chiral_restr 0.066 r_symmetry_hbond_refined 0.064 r_bond_refined_d 0.01 r_gen_planes_refined 0.004 r_bond_other_d 0.001 r_gen_planes_other 0.001
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 761 Nucleic Acid Atoms Solvent Atoms 30 Heterogen Atoms
Software Software Software Name Purpose REFMAC refinement ADSC data collection XDS data reduction XDS data scaling PHASER phasing