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Biochemical and structural analysis of the Clavulanic acid dehydeogenase (CAD) from Streptomyces clavuligerus
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 6.5 10% PEG 1000, 10% PEG 8000, 0.3 M SODIUM ACETATE, 0.05 M BIS-TRIS BUFFER (PH 6.5)
Crystal Properties Matthews coefficient Solvent content 2.2 42.7
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 58.748 α = 90 b = 122.626 β = 90 c = 126.594 γ = 90
Symmetry Space Group P 21 21 21
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 MARRESEARCH TOROIDAL MIRROR 2004-02-24 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON ESRF BEAMLINE ID14-3 ESRF ID14-3
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 1.8 29.92 96.2 0.07 19.1 5.1 82024 6
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 1.8 1.9 80.6 0.39 3.7 4.1
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 SAD THROUGHOUT NONE 1.8 29.92 77845 4118 95.9 0.184 0.182 0.1816 0.209 0.2085 RANDOM 23.95
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] 0.2 0.2 -0.39
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 34.493 r_dihedral_angle_4_deg 14.178 r_dihedral_angle_3_deg 13.16 r_dihedral_angle_1_deg 5.908 r_scangle_it 2.446 r_scbond_it 1.534 r_angle_refined_deg 1.295 r_mcangle_it 0.736 r_mcbond_it 0.498 r_nbtor_refined 0.295
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 34.493 r_dihedral_angle_4_deg 14.178 r_dihedral_angle_3_deg 13.16 r_dihedral_angle_1_deg 5.908 r_scangle_it 2.446 r_scbond_it 1.534 r_angle_refined_deg 1.295 r_mcangle_it 0.736 r_mcbond_it 0.498 r_nbtor_refined 0.295 r_symmetry_vdw_refined 0.207 r_nbd_refined 0.195 r_symmetry_hbond_refined 0.163 r_xyhbond_nbd_refined 0.117 r_chiral_restr 0.078 r_bond_refined_d 0.01 r_gen_planes_refined 0.004 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 7335 Nucleic Acid Atoms Solvent Atoms 494 Heterogen Atoms 192
Software Software Software Name Purpose REFMAC refinement MOSFLM data reduction SCALA data scaling SHELXCD phasing SHELXD phasing autoSHARP phasing