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Crystal structure of UDP-N-acetylglucosamine pyrophosphorylase (Agx2) from Mus musculus at 2.50 A resolution
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION,SITTING DROP,NANODROP 6.5 277 1.6M (NH4)2SO4, 0.1M Cacodylate pH 6.5, 0.2M NaCl , VAPOR DIFFUSION,SITTING DROP,NANODROP, temperature 277K
Crystal Properties Matthews coefficient Solvent content 2.9 57.25
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 80.094 α = 90 b = 73.402 β = 99.83 c = 107.132 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 2003-06-05 M SINGLE WAVELENGTH 2 1 x-ray M MAD 1,2 1
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON ALS BEAMLINE 8.2.1 ALS 8.2.1 2 SYNCHROTRON ALS BEAMLINE 8.2.1 0.9792,1.0000,0.9791 ALS 8.2.1
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (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 2.5 29.11 99.3 0.073 9.5 3.4 42134 54.17
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R-Sym I (Observed) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1,2 2.5 2.64 96.9 0.402 2.7 3.3 5964
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 MAD THROUGHOUT 2.5 29.11 39990 2124 99.2 0.20971 0.20676 0.2123 0.26573 0.2722 RANDOM 41.392
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] -2.11 -2.47 -2.7 3.96
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 38.707 r_dihedral_angle_3_deg 16.535 r_dihedral_angle_4_deg 16.483 r_dihedral_angle_1_deg 7.055 r_scangle_it 6.11 r_scbond_it 4.28 r_mcangle_it 2.513 r_mcbond_it 1.872 r_angle_refined_deg 1.417 r_angle_other_deg 0.794
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 38.707 r_dihedral_angle_3_deg 16.535 r_dihedral_angle_4_deg 16.483 r_dihedral_angle_1_deg 7.055 r_scangle_it 6.11 r_scbond_it 4.28 r_mcangle_it 2.513 r_mcbond_it 1.872 r_angle_refined_deg 1.417 r_angle_other_deg 0.794 r_mcbond_other 0.408 r_symmetry_vdw_refined 0.246 r_nbd_refined 0.23 r_symmetry_vdw_other 0.207 r_nbtor_refined 0.188 r_nbd_other 0.182 r_symmetry_hbond_refined 0.166 r_xyhbond_nbd_refined 0.161 r_nbtor_other 0.088 r_xyhbond_nbd_other 0.076 r_chiral_restr 0.075 r_bond_refined_d 0.014 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 7504 Nucleic Acid Atoms Solvent Atoms 122 Heterogen Atoms 13
Software Software Software Name Purpose MOSFLM data reduction SCALA data scaling SHARP phasing REFMAC refinement CCP4 data scaling