☰ Navigation Tabs
Mannosyl-3-phosphoglycerate synthase from Thermus thermophilus HB27 in complex with GDP-alpha-D-Mannose and Mg(II)
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 6.5 0.2 M MAGNESIUM ACETATE, 0.1 M SODIUM CACODYLATE PH 6.5, 30-35% MPD WITH 600 MM ZNCL2 AS AN ADDITIVE, CO-CRYSTALLIZED WITH 1-5 MM GDP-ALPHA-D-MANNOSE
Crystal Properties Matthews coefficient Solvent content 3.6 65.7
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 113.456 α = 90 b = 113.456 β = 90 c = 195.982 γ = 90
Symmetry Space Group P 41 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 CCD M MAD
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON ESRF BEAMLINE ID23-1 ESRF ID23-1
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 2.8 45.1 99.3 0.07 15.62 6.1 32332 -3
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 2.8 2.97 98.8 1.51 1.23 6.3
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Starting model 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 NONE 2.806 45.08 30259 1620 99.4 0.17579 0.1727 0.1714 0.23396 0.2266 RANDOM 71.293
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] 2.55 2.55 -5.11
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 36.483 r_dihedral_angle_3_deg 20.362 r_dihedral_angle_4_deg 19.052 r_dihedral_angle_1_deg 6.627 r_scangle_it 4.608 r_scbond_it 2.713 r_angle_refined_deg 1.669 r_mcangle_it 1.531 r_mcbond_it 0.777 r_chiral_restr 0.103
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 36.483 r_dihedral_angle_3_deg 20.362 r_dihedral_angle_4_deg 19.052 r_dihedral_angle_1_deg 6.627 r_scangle_it 4.608 r_scbond_it 2.713 r_angle_refined_deg 1.669 r_mcangle_it 1.531 r_mcbond_it 0.777 r_chiral_restr 0.103 r_bond_refined_d 0.016 r_gen_planes_refined 0.007 r_bond_other_d r_angle_other_deg r_gen_planes_other r_nbd_refined r_nbd_other r_nbtor_refined r_nbtor_other r_xyhbond_nbd_refined r_xyhbond_nbd_other r_metal_ion_refined r_metal_ion_other r_symmetry_vdw_refined r_symmetry_vdw_other r_symmetry_hbond_refined 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 6026 Nucleic Acid Atoms Solvent Atoms 36 Heterogen Atoms 85
Software Software Software Name Purpose XDS data reduction XDS data scaling SHELXCDE phasing SHARP phasing REFMAC refinement