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Crystal structure of L-asparaginase I from Vibrio cholerae O1 biovar eltor str. N16961
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 7 291 2M Ammonium Acetate, pH 7.0, VAPOR DIFFUSION, HANGING DROP, temperature 291K, pH 7.00
Crystal Properties Matthews coefficient Solvent content 2.54 51.53
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 53.235 α = 90 b = 117.838 β = 91.44 c = 121.431 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 100 CCD ADSC QUANTUM 315 2004-05-15 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON APS BEAMLINE 19-ID APS 19-ID
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 2.45 40 97.4 0.131 10.3 3.8 55186
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 2.45 2.49 93.1 0.51 2.2 3
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Resolution (High) Resolution (Low) Number Reflections (All) 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 SAD THROUGHOUT 2.45 33.3 50838 50838 2739 97.4 0.179 0.176 0.1808 0.246 0.247 RANDOM 15.51
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] -0.14 0.12 0.26 -0.11
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 38.056 r_dihedral_angle_4_deg 19.373 r_dihedral_angle_3_deg 18.026 r_dihedral_angle_1_deg 7.262 r_scangle_it 3.329 r_scbond_it 2.333 r_angle_refined_deg 1.822 r_mcangle_it 1.328 r_angle_other_deg 1.159 r_mcbond_it 1.065
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 38.056 r_dihedral_angle_4_deg 19.373 r_dihedral_angle_3_deg 18.026 r_dihedral_angle_1_deg 7.262 r_scangle_it 3.329 r_scbond_it 2.333 r_angle_refined_deg 1.822 r_mcangle_it 1.328 r_angle_other_deg 1.159 r_mcbond_it 1.065 r_nbd_refined 0.232 r_nbd_other 0.212 r_symmetry_hbond_refined 0.201 r_xyhbond_nbd_refined 0.192 r_nbtor_refined 0.189 r_symmetry_vdw_other 0.178 r_mcbond_other 0.151 r_symmetry_vdw_refined 0.125 r_chiral_restr 0.099 r_nbtor_other 0.093 r_bond_refined_d 0.02 r_xyhbond_nbd_other 0.012 r_gen_planes_refined 0.006 r_bond_other_d 0.001 r_gen_planes_other 0.001 r_metal_ion_refined r_metal_ion_other r_symmetry_hbond_other r_symmetry_metal_ion_refined r_symmetry_metal_ion_other r_rigid_bond_restr r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 10089 Nucleic Acid Atoms Solvent Atoms 524 Heterogen Atoms 22
Software Software Software Name Purpose REFMAC refinement HKL-3000 data reduction HKL-3000 data scaling SHARP phasing