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The P56A mutant of Lactococcus lactis dihydroorotate dehydrogenase A
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 2DOR Lactococcus lactis DHODA, PDB ID 2DOR
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 293 PEG 6K, Na-acetate, TRIS-HCl, VAPOR DIFFUSION, HANGING DROP, temperature 293K
Crystal Properties Matthews coefficient Solvent content 2.72 54.79
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 53.074 α = 90 b = 108.822 β = 103.92 c = 66.453 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 120 IMAGE PLATE MARRESEARCH 1999-03-17 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON MAX II BEAMLINE I711 0.992 MAX II I711
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 1.93 20 93.6 0.046 29.9 3.8 452819 57637 14.4
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) 1.93 1.97 82.2 0.187 6.2 2390
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Starting model Resolution (High) Resolution (Low) Number Reflections (All) Number Reflections (Observed) Number Reflections (R-Free) Percent Reflections (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 Lactococcus lactis DHODA, PDB ID 2DOR 1.9 20 53904 53904 5431 0.196 0.174 0.236 0.2101 RANDOM 22.97
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]
RMS Deviations Key Refinement Restraint Deviation p_transverse_tor 27 p_planar_tor 13.3 p_staggered_tor 13 p_multtor_nbd 0.242 p_singtor_nbd 0.183 p_xyhbond_nbd 0.153 p_planar_d 0.061 p_angle_d 0.035 p_bond_d 0.021 p_xhyhbond_nbd
RMS Deviations Key Refinement Restraint Deviation p_transverse_tor 27 p_planar_tor 13.3 p_staggered_tor 13 p_multtor_nbd 0.242 p_singtor_nbd 0.183 p_xyhbond_nbd 0.153 p_planar_d 0.061 p_angle_d 0.035 p_bond_d 0.021 p_xhyhbond_nbd p_special_tor
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 4784 Nucleic Acid Atoms Solvent Atoms 358 Heterogen Atoms 84
Software Software Software Name Purpose DENZO data reduction SCALEPACK data scaling AMoRE phasing REFMAC refinement