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The Structure Of Potential Metal-Dependent Hydrolase With Cyclase Activity
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1R61
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 7.5 298 0.2M LiSulfate, 0.1M TrisH8.5, 1.26M AmmSulfate
freezing cond: 20% ethylene glycol, pH 7.5, VAPOR DIFFUSION, HANGING DROP, temperature 298.0K
Crystal Properties Matthews coefficient Solvent content 4.78 74.26
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 119.096 α = 90 b = 119.096 β = 90 c = 124.413 γ = 90
Symmetry Space Group P 41 21 2
Diffraction Diffraction Experiment ID # Crystal ID Scattering Type Data Collection Temperature Detector Detector Type Details Collection Date Monochromator Protocol 1 1 x-ray 110 CCD SBC-3 2007-02-09 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON APS BEAMLINE 19-BM 0.979 APS 19-BM
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge I (Observed) R Sym 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 2.55 50 99.9 0.072 0.072 39.3 8.4 29938 -5
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R Merge I (Observed) R-Sym I (Observed) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 2.55 2.64 100 0.688 0.688 2.772 8.2 2935
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 1R61 2.55 34.88 28852 961 99.67 0.19434 0.19273 0.1916 0.24435 0.2329 RANDOM 28.582
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] 0.29 0.29 -0.59
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 31.845 r_dihedral_angle_4_deg 17.558 r_dihedral_angle_3_deg 14.109 r_dihedral_angle_1_deg 6.298 r_scangle_it 3.938 r_scbond_it 2.505 r_angle_refined_deg 1.667 r_mcangle_it 1.515 r_mcbond_it 0.917 r_nbtor_refined 0.313
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 31.845 r_dihedral_angle_4_deg 17.558 r_dihedral_angle_3_deg 14.109 r_dihedral_angle_1_deg 6.298 r_scangle_it 3.938 r_scbond_it 2.505 r_angle_refined_deg 1.667 r_mcangle_it 1.515 r_mcbond_it 0.917 r_nbtor_refined 0.313 r_nbd_refined 0.203 r_symmetry_vdw_refined 0.172 r_xyhbond_nbd_refined 0.156 r_chiral_restr 0.111 r_symmetry_hbond_refined 0.096 r_bond_refined_d 0.018 r_gen_planes_refined 0.006
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 3174 Nucleic Acid Atoms Solvent Atoms 124 Heterogen Atoms 65
Software Software Software Name Purpose HKL-3000 data collection MOLREP phasing REFMAC refinement HKL-3000 data reduction HKL-3000 data scaling