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Crystal Structure of Monoclinic Form of D90E Mutant of Escherichia coli Asparaginase II
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 3ECA MONOMER A FROM NATIVE L-ASPARAGINASE II STRUCTURE - PDB CODE: 3ECA
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 6.5 293 PEG MME 550, MES, zinc sulfate, pH 6.5, 292 K, VAPOR DIFFUSION, HANGING DROP, temperature 293K
Crystal Properties Matthews coefficient Solvent content 2.1 40.5
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 73.118 α = 90 b = 133.076 β = 108.78 c = 62.565 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 IMAGE PLATE MARRESEARCH Vertically focusing cylindrical pre-mirror 1999-03-21 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON MAX II BEAMLINE I711 1.104 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 2.27 25 98.6 0.098 28.9 4.9 26057 26057 -3 36.4
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 2.27 2.35 87.3 0.143 6.2 2.9
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Starting model Resolution (High) Resolution (Low) Cut-off Sigma (I) Number Reflections (All) Number Reflections (Observed) Number Reflections (R-Free) Percent Reflections (Observed) R-Factor (All) 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 MONOMER A FROM NATIVE L-ASPARAGINASE II STRUCTURE - PDB CODE: 3ECA 2.27 10 -3 24392 24392 1301 99.5 0.1828 0.1828 0.1802 0.1967 0.232 0.2454 RANDOM 22.56
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] -0.71 -1.44 0.73 -0.95
RMS Deviations Key Refinement Restraint Deviation p_planar_d 4.396 p_scangle_it 3.199 p_scbond_it 2.062 p_angle_d 1.639 p_mcangle_it 1.199 p_mcbond_it 0.672 p_chiral_restr 0.1 p_bond_d 0.016 p_plane_restr 0.005 p_angle_deg
RMS Deviations Key Refinement Restraint Deviation p_planar_d 4.396 p_scangle_it 3.199 p_scbond_it 2.062 p_angle_d 1.639 p_mcangle_it 1.199 p_mcbond_it 0.672 p_chiral_restr 0.1 p_bond_d 0.016 p_plane_restr 0.005 p_angle_deg p_hb_or_metal_coord p_singtor_nbd p_multtor_nbd p_xhyhbond_nbd p_xyhbond_nbd p_planar_tor p_staggered_tor p_orthonormal_tor p_transverse_tor p_special_tor
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 4587 Nucleic Acid Atoms Solvent Atoms 136 Heterogen Atoms 3
Software Software Software Name Purpose DENZO data reduction SCALEPACK data scaling EPMR phasing REFMAC refinement