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alkyldihydroxyacetonephosphate synthase in P212121
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 2UUV PDB ENTRY 2UUV
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 12% PEG4K, 200 MM LI2SO4, 100 MM TRISCL PH=8.5
Crystal Properties Matthews coefficient Solvent content 3.08 40
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 103.499 α = 90 b = 108.913 β = 90 c = 216.492 γ = 90
Symmetry Space Group P 21 21 21
Diffraction Diffraction Experiment ID # Crystal ID Scattering Type Data Collection Temperature Detector Detector Type Details Collection Date Monochromator Protocol 1 1 x-ray 273 CCD ADSC CCD 2006-11-29 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON ESRF BEAMLINE ID29 ESRF ID29
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 1.95 29.9 99.8 0.01 12.5 5.1 177635
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 1.95 2.06 100 0.42 3.2 5.2
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 MOLECULAR REPLACEMENT THROUGHOUT PDB ENTRY 2UUV 1.95 29.93 168705 8930 99.8 0.196 0.193 0.2229 0.244 0.2648 RANDOM 26.32
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] -1.22 2.44 -1.22
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 32.717 r_dihedral_angle_4_deg 17.518 r_dihedral_angle_3_deg 15.357 r_dihedral_angle_1_deg 5.941 r_scangle_it 2.813 r_scbond_it 1.856 r_angle_refined_deg 1.443 r_mcangle_it 1.38 r_mcbond_it 0.888 r_nbtor_refined 0.303
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 32.717 r_dihedral_angle_4_deg 17.518 r_dihedral_angle_3_deg 15.357 r_dihedral_angle_1_deg 5.941 r_scangle_it 2.813 r_scbond_it 1.856 r_angle_refined_deg 1.443 r_mcangle_it 1.38 r_mcbond_it 0.888 r_nbtor_refined 0.303 r_symmetry_vdw_refined 0.207 r_nbd_refined 0.204 r_xyhbond_nbd_refined 0.139 r_symmetry_hbond_refined 0.114 r_chiral_restr 0.108 r_bond_refined_d 0.015 r_gen_planes_refined 0.006 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_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 17325 Nucleic Acid Atoms Solvent Atoms 1550 Heterogen Atoms 280
Software Software Software Name Purpose REFMAC refinement MOSFLM data reduction SCALA data scaling AMoRE phasing