☰ Navigation Tabs
Crystal structure of the class D beta-lactamase OXA-13
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1EWZ PDB ENTRY 1EWZ
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 5.5 15-17% (W/V) PEG 4000, 0.1M SODIUM CACODYLATE PH 5.0-5.5, 0.2M LITHIUM SULFATE, PROTEIN 12-15 MG/ML
Crystal Properties Matthews coefficient Solvent content 2.3 47
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 50.73 α = 90 b = 81.71 β = 90 c = 125.16 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 ADSC QUANTUM 4 2000-05-13 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON ESRF BEAMLINE ID14-2 ESRF ID14-2
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 20 97.3 0.05 16.9 3.5 47483 2.5
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 92.8 0.22 2.8 3
Refinement Statistics Diffraction ID Structure Solution Method Starting model Resolution (High) Resolution (Low) 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 PDB ENTRY 1EWZ 1.8 20 42571 4877 97.3 0.197 0.1887 0.247 0.2303 RANDOM 29.3
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 28.8 p_staggered_tor 15.4 p_scangle_it 8.414 p_scbond_it 6.631 p_mcangle_it 6.238 p_mcbond_it 5.25 p_planar_tor 4.7 p_multtor_nbd 0.263 p_chiral_restr 0.203 p_singtor_nbd 0.18
RMS Deviations Key Refinement Restraint Deviation p_transverse_tor 28.8 p_staggered_tor 15.4 p_scangle_it 8.414 p_scbond_it 6.631 p_mcangle_it 6.238 p_mcbond_it 5.25 p_planar_tor 4.7 p_multtor_nbd 0.263 p_chiral_restr 0.203 p_singtor_nbd 0.18 p_planar_d 0.034 p_plane_restr 0.03 p_bond_d 0.023 p_angle_d 0.021 p_angle_deg p_hb_or_metal_coord p_xhyhbond_nbd p_xyhbond_nbd p_orthonormal_tor p_special_tor
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 3672 Nucleic Acid Atoms Solvent Atoms 212 Heterogen Atoms 25
Software Software Software Name Purpose REFMAC refinement MOSFLM data reduction SCALA data scaling AMoRE phasing