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Human CTP synthetase 2 - glutaminase domain in complex with 5-OXO-L- NORLEUCINE
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 2VKT PDB ENTRY 2VKT
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 7 0.1M HEPES, PH 7.0, 0.02 M MGCL2, 30% POLYACRYLIC ACID 5100. CRYSTALS WERE SOAKED WITH 20.6 MM DON FOR 90 MIN
Crystal Properties Matthews coefficient Solvent content 2.72 54.9
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 118.88 α = 90 b = 72.33 β = 95.6 c = 41.47 γ = 90
Symmetry Space Group C 1 2 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 CCD ADSC CCD MIRRORS 2008-04-21 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON ESRF BEAMLINE ID23-1 ESRF ID23-1
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 2.3 20 96 0.09 18.27 5.8 15010 2
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 2.3 2.4 86.6 0.25 11.3 5.4
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 2VKT 2.3 19.72 13946 1050 100 0.211 0.207 0.2133 0.258 0.2646 RANDOM 31.91
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] 2.07 -2.11 -1.81 -0.67
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 32.833 r_dihedral_angle_4_deg 17.28 r_dihedral_angle_3_deg 15.043 r_dihedral_angle_1_deg 6.152 r_scangle_it 2.142 r_scbond_it 1.492 r_angle_other_deg 1.472 r_angle_refined_deg 1.266 r_mcangle_it 1.23 r_mcbond_it 0.828
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 32.833 r_dihedral_angle_4_deg 17.28 r_dihedral_angle_3_deg 15.043 r_dihedral_angle_1_deg 6.152 r_scangle_it 2.142 r_scbond_it 1.492 r_angle_other_deg 1.472 r_angle_refined_deg 1.266 r_mcangle_it 1.23 r_mcbond_it 0.828 r_symmetry_vdw_refined 0.266 r_symmetry_hbond_refined 0.222 r_symmetry_vdw_other 0.22 r_nbd_refined 0.189 r_nbd_other 0.18 r_nbtor_refined 0.168 r_xyhbond_nbd_refined 0.153 r_nbtor_other 0.096 r_chiral_restr 0.071 r_bond_refined_d 0.01 r_gen_planes_refined 0.004 r_bond_other_d 0.002 r_gen_planes_other 0.001 r_xyhbond_nbd_other r_metal_ion_refined r_metal_ion_other r_symmetry_hbond_other r_symmetry_metal_ion_refined r_symmetry_metal_ion_other r_mcbond_other r_mcangle_other r_scbond_other 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 2107 Nucleic Acid Atoms Solvent Atoms 40 Heterogen Atoms
Software Software Software Name Purpose REFMAC refinement XDS data reduction XSCALE data scaling MOLREP phasing