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DETHIOBIOTIN SYNTHETASE FROM ESCHERICHIA COLI, COMPLEX REACTION INTERMEDIATE ADP AND MIXED ANHYDRIDE
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1DAH PDB ENTRY 1DAH, WITH NON-PROTEIN ATOMS EXCLUDED
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 8.5 pH 8.5
Crystal Properties Matthews coefficient Solvent content 2.13 42.3
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 72.68 α = 90 b = 48.19 β = 106.58 c = 61.07 γ = 90
Symmetry Space Group C 1 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 100 CCD PRINCETON 2K 1997-10-26 M
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON ESRF BEAMLINE ID09 ESRF ID09
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Sym 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 1.6 25 99 0.078 16 3.2 86120
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R-Sym I (Observed) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 1.6 1.66 92.4 0.43 2.8 2.6
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-Work (Depositor) R-Free (Depositor) R-Free Selection Details Mean Isotropic B X-RAY DIFFRACTION DIFFERENCE FOURIER THROUGHOUT PDB ENTRY 1DAH, WITH NON-PROTEIN ATOMS EXCLUDED 1.6 20 29418 1505 99 0.184 0.21 RANDOM 13.6
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_staggered_tor 15.9 p_planar_tor 3.1 p_scangle_it 1.949 p_mcangle_it 1.335 p_scbond_it 1.227 p_mcbond_it 0.862 p_multtor_nbd 0.258 p_singtor_nbd 0.172 p_chiral_restr 0.081 p_planar_d 0.021
RMS Deviations Key Refinement Restraint Deviation p_staggered_tor 15.9 p_planar_tor 3.1 p_scangle_it 1.949 p_mcangle_it 1.335 p_scbond_it 1.227 p_mcbond_it 0.862 p_multtor_nbd 0.258 p_singtor_nbd 0.172 p_chiral_restr 0.081 p_planar_d 0.021 p_angle_d 0.02 p_plane_restr 0.0165 p_bond_d 0.006 p_angle_deg p_hb_or_metal_coord p_xhyhbond_nbd p_xyhbond_nbd p_orthonormal_tor p_transverse_tor p_special_tor
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 1692 Nucleic Acid Atoms Solvent Atoms 216 Heterogen Atoms 54
Software Software Software Name Purpose CCP4 model building REFMAC refinement DENZO data reduction SCALEPACK data scaling CCP4 phasing