☰ Navigation Tabs
Catabolic ornithine carbamoyltransferases (OTCs) from Psychrobacter sp. PAMC 21119
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1ORT modeled
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 293 0.1M Tris-HCl pH 8.1, 1.3M Lithium Sulfate
Crystal Properties Matthews coefficient Solvent content 3.61 65.96
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 130.061 α = 90 b = 130.061 β = 90 c = 329.326 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 EIGER X 9M 2021-04-13 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON PAL/PLS BEAMLINE 5C (4A) 0.9794 PAL/PLS 5C (4A)
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) CC (Half) 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 2.598 46.527 99.9 0.995 31.3 5.3 63985 65.96
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) CC (Half) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 2.598 2.65 0.959
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 (All) R-Work (Depositor) R-Work (DCC) R-Free (Depositor) R-Free (DCC) Mean Isotropic B X-RAY DIFFRACTION MOLECULAR REPLACEMENT THROUGHOUT modeled 2.598 46.527 63884 3460 99.674 0.205 0.2013 0.2027 0.2642 0.2632 79.593
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] -0.002 -0.001 -0.002 0.005
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 34.163 r_dihedral_angle_3_deg 19.466 r_dihedral_angle_4_deg 18.169 r_lrange_it 16.46 r_lrange_other 16.46 r_mcangle_it 12.019 r_mcangle_other 12.019 r_scangle_it 11.783 r_scangle_other 11.772 r_mcbond_it 8.213
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 34.163 r_dihedral_angle_3_deg 19.466 r_dihedral_angle_4_deg 18.169 r_lrange_it 16.46 r_lrange_other 16.46 r_mcangle_it 12.019 r_mcangle_other 12.019 r_scangle_it 11.783 r_scangle_other 11.772 r_mcbond_it 8.213 r_mcbond_other 8.204 r_dihedral_angle_1_deg 8.153 r_scbond_it 7.883 r_scbond_other 7.876 r_angle_refined_deg 1.721 r_angle_other_deg 1.26 r_nbd_refined 0.222 r_symmetry_nbd_other 0.198 r_nbd_other 0.19 r_xyhbond_nbd_refined 0.186 r_nbtor_refined 0.17 r_symmetry_xyhbond_nbd_refined 0.164 r_symmetry_nbd_refined 0.141 r_symmetry_xyhbond_nbd_other 0.088 r_symmetry_nbtor_other 0.081 r_chiral_restr 0.073 r_bond_refined_d 0.009 r_gen_planes_refined 0.007 r_gen_planes_other 0.002 r_bond_other_d 0.001
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 10383 Nucleic Acid Atoms Solvent Atoms 45 Heterogen Atoms 5
Software Software Software Name Purpose REFMAC refinement HKL-2000 data reduction HKL-2000 data scaling MOLREP phasing