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Aspartate transcarbamoylase domain of human CAD bound to PALA
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 3CSU PDB ENTRY 3CSU
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 10% ZNCL2, 15% PEG6000, 50 MM SODIUM ACETATE PH 4.8
Crystal Properties Matthews coefficient Solvent content 2.1 41
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 83.03 α = 90 b = 145.12 β = 120.03 c = 83.16 γ = 90
Symmetry Space Group P 1 21 1
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 PILATUS 6M 2013-09-25 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON ALBA BEAMLINE XALOC ALBA XALOC
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge 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 2.1 50 98 0.07 13.9 3.4 92437 1
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R Merge I (Observed) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 2.1 2.15 97.9 0.6 2.5 3.4
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 PDB ENTRY 3CSU 2.1 41.58 92437 5117 97.92 0.15518 0.15231 0.1555 0.20757 0.189 RANDOM 36.506
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] -3.98 6.01 1.04 2.93
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 37.252 r_dihedral_angle_3_deg 17.446 r_dihedral_angle_4_deg 16.186 r_dihedral_angle_1_deg 6.283 r_mcangle_it 2.573 r_mcbond_it 1.672 r_mcbond_other 1.672 r_scbond_it 1.497 r_angle_refined_deg 1.268 r_angle_other_deg 0.792
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 37.252 r_dihedral_angle_3_deg 17.446 r_dihedral_angle_4_deg 16.186 r_dihedral_angle_1_deg 6.283 r_mcangle_it 2.573 r_mcbond_it 1.672 r_mcbond_other 1.672 r_scbond_it 1.497 r_angle_refined_deg 1.268 r_angle_other_deg 0.792 r_chiral_restr 0.071 r_bond_refined_d 0.007 r_gen_planes_refined 0.005 r_bond_other_d 0.001 r_gen_planes_other 0.001 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_mcangle_other r_scbond_other r_scangle_it r_scangle_other r_long_range_B_refined r_long_range_B_other r_rigid_bond_restr r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 14134 Nucleic Acid Atoms Solvent Atoms 483 Heterogen Atoms 104
Software Software Software Name Purpose REFMAC refinement XDS data reduction XSCALE data scaling PHASER phasing