☰ Navigation Tabs
2.0 A crystal structure of GDP-mannose dehydrogenase
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 4.6 323 8% MPD, 100 mM Na acetate, pH 4.6, VAPOR DIFFUSION, HANGING DROP, temperature 323K
Crystal Properties Matthews coefficient Solvent content 2.74 55.16
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 82.497 α = 90 b = 82.497 β = 90 c = 310.173 γ = 90
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 4 M MAD
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON APS BEAMLINE 19-ID 0.97934, 0.97947, 0.94225 APS 19-ID
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (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 50 98.5 128981 128981
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 2 2.103 90.2
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-Free (Depositor) R-Free Selection Details Mean Isotropic B X-RAY DIFFRACTION MAD THROUGHOUT 2.02 50 128981 6829 99.1 0.20999 0.20872 0.23442 RANDOM 18.58
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] -0.02 -0.02 0.04
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_3_deg 17.007 r_dihedral_angle_1_deg 3.371 r_scangle_it 2.789 r_scbond_it 1.702 r_angle_refined_deg 1.428 r_mcangle_it 1.012 r_mcbond_it 0.534 r_chiral_restr 0.08 r_bond_refined_d 0.012 r_bond_other_d
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_3_deg 17.007 r_dihedral_angle_1_deg 3.371 r_scangle_it 2.789 r_scbond_it 1.702 r_angle_refined_deg 1.428 r_mcangle_it 1.012 r_mcbond_it 0.534 r_chiral_restr 0.08 r_bond_refined_d 0.012 r_bond_other_d r_angle_other_deg r_gen_planes_refined r_gen_planes_other r_nbd_refined r_nbd_other r_nbtor_other r_xyhbond_nbd_refined r_xyhbond_nbd_other r_symmetry_vdw_refined r_symmetry_vdw_other r_symmetry_hbond_refined r_symmetry_hbond_other r_rigid_bond_restr r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 12856 Nucleic Acid Atoms Solvent Atoms 903 Heterogen Atoms 323
Software Software Software Name Purpose DENZO data reduction SCALEPACK data scaling SOLVE phasing REFMAC refinement