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Discovery and characterization of thermophilic limonene-1,2-epoxide hydrolases from hot spring metagenomic libraries. Tomsk-sample- Valpromide complex
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1NWW PDB ENTRY 1NWW
Crystallization Crystal Properties Matthews coefficient Solvent content 2.71 55.7
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 96.46 α = 90 b = 96.46 β = 90 c = 56.94 γ = 120
Diffraction Diffraction Experiment ID # Crystal ID Scattering Type Data Collection Temperature Detector Detector Type Details Collection Date Monochromator Protocol 1 1 x-ray 100 PIXEL DECTRIS PILATUS 6M M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON DIAMOND BEAMLINE I03 Diamond I03
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 1.16 48.2 99.9 0.06 15.9 9.7 104136 2
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 1.16 1.19 99.4 0.97 2 7.6
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 MOLECULAR REPLACEMENT THROUGHOUT PDB ENTRY 1NWW 1.16 48.23 98956 5139 99.94 0.10923 0.108 0.1242 0.13265 0.1444 RANDOM 17.935
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] -0.45 -0.23 -0.45 1.47
RMS Deviations Key Refinement Restraint Deviation r_sphericity_free 40.232 r_dihedral_angle_2_deg 35.279 r_sphericity_bonded 17.189 r_dihedral_angle_3_deg 15.069 r_dihedral_angle_4_deg 11.498 r_dihedral_angle_1_deg 5.816 r_scbond_it 5.609 r_rigid_bond_restr 3.976 r_mcangle_it 3.38 r_mcbond_other 2.47
RMS Deviations Key Refinement Restraint Deviation r_sphericity_free 40.232 r_dihedral_angle_2_deg 35.279 r_sphericity_bonded 17.189 r_dihedral_angle_3_deg 15.069 r_dihedral_angle_4_deg 11.498 r_dihedral_angle_1_deg 5.816 r_scbond_it 5.609 r_rigid_bond_restr 3.976 r_mcangle_it 3.38 r_mcbond_other 2.47 r_mcbond_it 2.442 r_angle_other_deg 1.861 r_angle_refined_deg 1.62 r_chiral_restr 0.113 r_bond_refined_d 0.012 r_gen_planes_refined 0.008 r_bond_other_d 0.004 r_gen_planes_other 0.003 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_mcangle_other r_scbond_other r_scangle_it r_scangle_other r_long_range_B_refined r_long_range_B_other
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 1960 Nucleic Acid Atoms Solvent Atoms 491 Heterogen Atoms 36
Software Software Software Name Purpose REFMAC refinement MOLREP phasing