☰ Navigation Tabs
REGULATION OF THE DHA OPERON OF LACTOCOCCUS LACTIS
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1OI2 PDB ENTRY 1OI2
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 7 0.15 M DL-MALIC ACID PH 7.0, 20% PEG-3350
Crystal Properties Matthews coefficient Solvent content 2.97 58.26
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 101.09 α = 90 b = 101.09 β = 90 c = 148.6 γ = 120
Symmetry Space Group P 32 2 1
Diffraction Diffraction Experiment ID # Crystal ID Scattering Type Data Collection Temperature Detector Detector Type Details Collection Date Monochromator Protocol 1 1 x-ray 110 IMAGE PLATE RIGAKU RAXIS-IV M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 ROTATING ANODE RIGAKU RU300
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 40 100 0.08 22.6 12.38 59910 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 2.04 100 0.45 6.88 10.95
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 1OI2 2 30 58399 1497 100 0.173 0.173 0.174 0.198 0.1955 RANDOM 30.98
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] -1.08 -0.54 -1.08 1.63
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 38.275 r_dihedral_angle_4_deg 27.749 r_dihedral_angle_3_deg 16.318 r_dihedral_angle_1_deg 6.863 r_scangle_it 3.938 r_scbond_it 2.682 r_mcangle_it 1.823 r_angle_refined_deg 1.662 r_mcbond_it 1.454 r_nbtor_refined 0.322
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 38.275 r_dihedral_angle_4_deg 27.749 r_dihedral_angle_3_deg 16.318 r_dihedral_angle_1_deg 6.863 r_scangle_it 3.938 r_scbond_it 2.682 r_mcangle_it 1.823 r_angle_refined_deg 1.662 r_mcbond_it 1.454 r_nbtor_refined 0.322 r_chiral_restr 0.29 r_nbd_refined 0.229 r_xyhbond_nbd_refined 0.168 r_symmetry_hbond_refined 0.149 r_symmetry_vdw_refined 0.148 r_bond_refined_d 0.013 r_gen_planes_refined 0.001 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 4981 Nucleic Acid Atoms Solvent Atoms 278 Heterogen Atoms 12
Software Software Software Name Purpose REFMAC refinement XDS data reduction XSCALE data scaling PHASER phasing