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Crystal structure of uncharacterized conserved protein YugN from Geobacillus kaustophilus HTA426
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 5.5 296 0.1M Bis-Tris pH 5.5, 25% PEG 3350, 10% Glycerol, VAPOR DIFFUSION, SITTING DROP, temperature 296K
Crystal Properties Matthews coefficient Solvent content 2.04 39.72
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 79.158 α = 90 b = 92.319 β = 90 c = 33.843 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 ADSC QUANTUM 315 2007-08-30 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON NSLS BEAMLINE X29A 0.97930 NSLS X29A
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 2.04 40 99.8 0.078 0.066 5.7 4.5 16524 31
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 2.04 2.11 99.4 0.47 0.46 1.3 3.9
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method 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 SAD THROUGHOUT 2.04 20 15909 519 99.76 0.19924 0.1981 0.2004 0.23344 0.2287 RANDOM 44.071
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] -0.88 0.17 0.7
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 37.193 r_dihedral_angle_3_deg 16.602 r_scangle_it 15.336 r_dihedral_angle_4_deg 12.91 r_scbond_it 11.364 r_mcangle_it 7.777 r_dihedral_angle_1_deg 6.349 r_mcbond_it 5.594 r_angle_refined_deg 1.172 r_nbtor_refined 0.295
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 37.193 r_dihedral_angle_3_deg 16.602 r_scangle_it 15.336 r_dihedral_angle_4_deg 12.91 r_scbond_it 11.364 r_mcangle_it 7.777 r_dihedral_angle_1_deg 6.349 r_mcbond_it 5.594 r_angle_refined_deg 1.172 r_nbtor_refined 0.295 r_symmetry_hbond_refined 0.161 r_xyhbond_nbd_refined 0.156 r_nbd_refined 0.139 r_symmetry_vdw_refined 0.121 r_chiral_restr 0.098 r_bond_refined_d 0.008 r_gen_planes_refined 0.003 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 1926 Nucleic Acid Atoms Solvent Atoms 133 Heterogen Atoms
Software Software Software Name Purpose SHELXD phasing SHELXE model building REFMAC refinement ADSC data collection HKL-2000 data reduction SCALEPACK data scaling