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Crystal structure of Est-Y29, a novel penicillin-binding protein/beta-lactamase homolog from a metagenomic library
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 EVAPORATION 287 1 M sodium citrate and 100 mM sodium acetate, pH 4.6
Crystal Properties Matthews coefficient Solvent content 3.26 62.27
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 121.731 α = 90 b = 121.731 β = 90 c = 155.829 γ = 90
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 2009-03-08 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON PAL/PLS BEAMLINE 4A 1.00000 PAL/PLS 4A
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (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 1.999 50 99.8 28.1 7.3 76224
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method 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 THROUGHOUT 1.999 33 72376 3834 99.77 0.17944 0.1777 0.1715 0.21224 0.2035 RANDOM 18.374
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] -0.01
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 35.404 r_dihedral_angle_4_deg 20.144 r_dihedral_angle_3_deg 13.101 r_dihedral_angle_1_deg 5.604 r_scangle_it 3.036 r_scbond_it 1.958 r_angle_refined_deg 1.247 r_mcangle_it 1.142 r_mcbond_it 0.631 r_chiral_restr 0.082
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 35.404 r_dihedral_angle_4_deg 20.144 r_dihedral_angle_3_deg 13.101 r_dihedral_angle_1_deg 5.604 r_scangle_it 3.036 r_scbond_it 1.958 r_angle_refined_deg 1.247 r_mcangle_it 1.142 r_mcbond_it 0.631 r_chiral_restr 0.082 r_bond_refined_d 0.011 r_gen_planes_refined 0.006 r_bond_other_d r_angle_other_deg r_gen_planes_other r_nbd_refined r_nbd_other r_nbtor_refined r_nbtor_other r_xyhbond_nbd_refined r_xyhbond_nbd_other r_metal_ion_refined r_metal_ion_other r_symmetry_vdw_refined r_symmetry_vdw_other r_symmetry_hbond_refined 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 6010 Nucleic Acid Atoms Solvent Atoms 816 Heterogen Atoms 28
Software Software Software Name Purpose REFMAC refinement