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Structural and mechanistic analysis of trans-3-chloroacrylic acid dehalogenase activity
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 3EJ3 PDB ENTRY 3EJ3
Crystallization Crystal Properties Matthews coefficient Solvent content 1.82 32.43
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 56.28 α = 90 b = 69.67 β = 90 c = 89.885 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 IMAGE PLATE MAR scanner 300 mm plate 2007-03-21 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON APS BEAMLINE 22-ID 1.00 APS 22-ID
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 1.5 55.1 97.4 56197 56197
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 1.5 1.55 86.1
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 Selection Details Mean Isotropic B X-RAY DIFFRACTION MOLECULAR REPLACEMENT THROUGHOUT PDB ENTRY 3EJ3 1.5 55.05 56135 53285 2850 97.41 0.21296 0.21119 0.24704 RANDOM 33.789
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] 1.28 -0.28 -1
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 38.948 r_dihedral_angle_4_deg 17.343 r_dihedral_angle_3_deg 13.437 r_dihedral_angle_1_deg 4.508 r_scangle_it 1.896 r_scbond_it 1.264 r_angle_refined_deg 1.123 r_mcangle_it 0.705 r_mcbond_it 0.475 r_nbtor_refined 0.297
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 38.948 r_dihedral_angle_4_deg 17.343 r_dihedral_angle_3_deg 13.437 r_dihedral_angle_1_deg 4.508 r_scangle_it 1.896 r_scbond_it 1.264 r_angle_refined_deg 1.123 r_mcangle_it 0.705 r_mcbond_it 0.475 r_nbtor_refined 0.297 r_nbd_refined 0.19 r_xyhbond_nbd_refined 0.138 r_symmetry_vdw_refined 0.129 r_symmetry_hbond_refined 0.125 r_chiral_restr 0.081 r_bond_refined_d 0.009 r_gen_planes_refined 0.004
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 2821 Nucleic Acid Atoms Solvent Atoms 378 Heterogen Atoms
Software Software Software Name Purpose SERGUI data collection PHASER phasing REFMAC refinement HKL-2000 data reduction HKL-2000 data scaling