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Crystal structure of anabolic ornithine carbamoyltransferase from Campylobacter jejuni subsp. jejuni NCTC 11168
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1A1S HOMOLOGY MODEL GENERATED BY SWISSMODEL BASED ON 1A1S STRUCTURE
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 8 293 25%PEG 3350, 0.2M Na Chloride, 0.1 HEPES, pH 8.0, VAPOR DIFFUSION, HANGING DROP, temperature 293K
Crystal Properties Matthews coefficient Solvent content 2.27 45.82
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 157.163 α = 90 b = 87.398 β = 90 c = 141.561 γ = 90
Symmetry Space Group P 21 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 CCD ADSC QUANTUM 315r mirrors 2010-03-19 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON APS BEAMLINE 19-ID 0.9793 APS 19-ID
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 2.7 50 99.9 0.089 0.089 33.4 7.8 54348 54348 -3 71.7
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 2.7 2.75 99.8 0.681 0.681 3 7.2 2709
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 (All) 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 HOMOLOGY MODEL GENERATED BY SWISSMODEL BASED ON 1A1S STRUCTURE 2.7 50 51489 51489 2758 99.76 0.20394 0.20394 0.20205 0.2039 0.24013 0.2432 RANDOM 80.468
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] -4.85 6.78 -1.93
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 31.442 r_dihedral_angle_4_deg 17.758 r_dihedral_angle_3_deg 17.302 r_dihedral_angle_1_deg 5.492 r_angle_refined_deg 1.772 r_angle_other_deg 1.736 r_chiral_restr 0.089 r_bond_refined_d 0.017 r_bond_other_d 0.009 r_gen_planes_refined 0.008
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 31.442 r_dihedral_angle_4_deg 17.758 r_dihedral_angle_3_deg 17.302 r_dihedral_angle_1_deg 5.492 r_angle_refined_deg 1.772 r_angle_other_deg 1.736 r_chiral_restr 0.089 r_bond_refined_d 0.017 r_bond_other_d 0.009 r_gen_planes_refined 0.008 r_gen_planes_other 0.007 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_it r_mcbond_other r_mcangle_it r_scbond_it r_scangle_it r_rigid_bond_restr r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 13856 Nucleic Acid Atoms Solvent Atoms 104 Heterogen Atoms 21
Software Software Software Name Purpose HKL-3000 data collection HKL-3000 phasing MOLREP phasing REFMAC refinement Coot model building HKL-3000 data reduction HKL-3000 data scaling