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3-carboxy-cis,cis-muconate lactonizing enzyme from Agrobacterium radiobacter S2
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 2FEL PDB ENTRY 2FEL
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 6.5 298 15 % PEG 8000, 100 mM ammonium sulphate, 3 % MPD, 100 mM MES, pH 6.5, VAPOR DIFFUSION, SITTING DROP, temperature 298K
Crystal Properties Matthews coefficient Solvent content 2.47 50.19
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 94.03 α = 90 b = 205.32 β = 90 c = 235.74 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 2005-03-14 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON ESRF BEAMLINE ID14-3 0.931 ESRF ID14-3
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 2.6 20 94.6 133154 -3
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 2.6 2.7 92.4
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Starting model Resolution (High) Resolution (Low) Number Reflections (All) Number Reflections (Observed) Number Reflections (R-Free) Percent Reflections (Observed) R-Factor (Observed) R-Work (Depositor) R-Free (Depositor) R-Free (DCC) R-Free Selection Details Mean Isotropic B X-RAY DIFFRACTION MOLECULAR REPLACEMENT THROUGHOUT PDB ENTRY 2FEL 2.6 19.99 126498 126496 6657 100 0.20315 0.20004 0.262 0.2537 RANDOM 28.505
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] 0.02 0.03 -0.05
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 36.194 r_dihedral_angle_4_deg 19.511 r_dihedral_angle_3_deg 19.47 r_dihedral_angle_1_deg 5.777 r_scangle_it 1.661 r_angle_refined_deg 1.455 r_scbond_it 1.025 r_mcangle_it 0.638 r_mcbond_it 0.356 r_nbtor_refined 0.314
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 36.194 r_dihedral_angle_4_deg 19.511 r_dihedral_angle_3_deg 19.47 r_dihedral_angle_1_deg 5.777 r_scangle_it 1.661 r_angle_refined_deg 1.455 r_scbond_it 1.025 r_mcangle_it 0.638 r_mcbond_it 0.356 r_nbtor_refined 0.314 r_symmetry_hbond_refined 0.168 r_nbd_refined 0.152 r_symmetry_vdw_refined 0.139 r_xyhbond_nbd_refined 0.103 r_chiral_restr 0.1 r_bond_refined_d 0.011 r_gen_planes_refined 0.005 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_rigid_bond_restr r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 30439 Nucleic Acid Atoms Solvent Atoms 825 Heterogen Atoms 25
Software Software Software Name Purpose REFMAC refinement XDS data reduction XDS data scaling MOLREP phasing