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gdp-mannose-3', 5' -epimerase (arabidopsis thaliana),k178r, with gdp-beta-l-gulose and gdp-4-keto-beta-l-gulose bound in active site.
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 7.4 PROTEIN CRYSTALISED IN 100MM HEPES PH 7.4, 2.16 M AMMONIUM SULPHATE, VAPOUR DIFFUSION, SITTING DROP. CRYOPROTECTED WITH 4M SODIUM FORMATE.
Crystal Properties Matthews coefficient Solvent content 1.95 37
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 62.278 α = 90 b = 82.457 β = 98.77 c = 65.875 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 CCD 2004-03-13 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON ESRF BEAMLINE ID14-1 ESRF ID14-1
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge 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 1.5 23.3 99.9 0.05 9.6 3.7 105071 13.37
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R Merge I (Observed) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 1.5 1.54 99.9 0.21 3.6 3.6
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Resolution (High) Resolution (Low) Cut-off Sigma (F) 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 MOLECULAR REPLACEMENT THROUGHOUT 1.5 64.55 0.96 105045 5247 99.9 0.121 0.118 0.1282 0.167 0.1716 RANDOM 11.09
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] -0.586 -0.157 1.229 -0.691
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 36.512 r_dihedral_angle_4_deg 21.279 r_dihedral_angle_3_deg 13.658 r_dihedral_angle_1_deg 6.442 r_scangle_it 4.578 r_scbond_it 3.563 r_mcangle_it 2.388 r_mcbond_it 2.064 r_angle_refined_deg 1.943 r_angle_other_deg 1.121
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 36.512 r_dihedral_angle_4_deg 21.279 r_dihedral_angle_3_deg 13.658 r_dihedral_angle_1_deg 6.442 r_scangle_it 4.578 r_scbond_it 3.563 r_mcangle_it 2.388 r_mcbond_it 2.064 r_angle_refined_deg 1.943 r_angle_other_deg 1.121 r_symmetry_vdw_other 0.275 r_symmetry_hbond_refined 0.26 r_nbd_refined 0.221 r_symmetry_vdw_refined 0.221 r_nbd_other 0.211 r_xyhbond_nbd_refined 0.207 r_nbtor_refined 0.185 r_chiral_restr 0.127 r_nbtor_other 0.09 r_bond_refined_d 0.02 r_gen_planes_refined 0.01 r_bond_other_d 0.002 r_gen_planes_other 0.001 r_xyhbond_nbd_other r_metal_ion_refined r_metal_ion_other r_symmetry_hbond_other r_symmetry_metal_ion_refined r_symmetry_metal_ion_other r_mcbond_other r_mcangle_other r_scbond_other r_scangle_other r_long_range_B_refined r_long_range_B_other r_rigid_bond_restr r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 5786 Nucleic Acid Atoms Solvent Atoms 944 Heterogen Atoms 313
Software Software Software Name Purpose REFMAC refinement MOSFLM data reduction SCALA data scaling PHASER phasing