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Crystal structure of carbamoylphosphate synthase large subunit (split gene in MJ) (ZP_00538348.1) from Exiguobacterium sp. 255-15 at 2.00 A resolution
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 4.7 277 NANODROP, 24.0% PEG 8000, 0.25M Sodium chloride, 0.1M Phosphate-citrate pH 4.7, VAPOR DIFFUSION, SITTING DROP, temperature 277K
Crystal Properties Matthews coefficient Solvent content 2.4 48.66
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 91.6 α = 90 b = 61.21 β = 124.02 c = 76.88 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 MARMOSAIC 325 mm CCD Flat collimating mirror, toroid focusing mirror 2007-04-01 M MAD
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON SSRL BEAMLINE BL9-2 0.91837, 0.97920 SSRL BL9-2
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 27.587 91.2 0.063 7.47 23426 33.272
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 2.07 83.5 0.351 2.6 3879
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Resolution (High) Resolution (Low) 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 MAD THROUGHOUT 2 27.587 23425 1200 97.7 0.195 0.195 0.192 0.1992 0.239 0.2426 RANDOM 28.712
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] 0.49 -0.84 -0.55 -0.87
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 34.793 r_dihedral_angle_3_deg 10.878 r_dihedral_angle_4_deg 10.831 r_scangle_it 6.094 r_scbond_it 4.548 r_dihedral_angle_1_deg 3.951 r_mcangle_it 2.351 r_angle_refined_deg 1.622 r_mcbond_it 1.562 r_angle_other_deg 1.306
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 34.793 r_dihedral_angle_3_deg 10.878 r_dihedral_angle_4_deg 10.831 r_scangle_it 6.094 r_scbond_it 4.548 r_dihedral_angle_1_deg 3.951 r_mcangle_it 2.351 r_angle_refined_deg 1.622 r_mcbond_it 1.562 r_angle_other_deg 1.306 r_mcbond_other 0.368 r_nbd_refined 0.168 r_symmetry_vdw_other 0.162 r_nbtor_refined 0.152 r_nbd_other 0.14 r_symmetry_vdw_refined 0.121 r_xyhbond_nbd_refined 0.099 r_chiral_restr 0.091 r_symmetry_hbond_refined 0.086 r_nbtor_other 0.072 r_bond_refined_d 0.013 r_gen_planes_refined 0.006 r_bond_other_d 0.003 r_gen_planes_other 0.002
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 2390 Nucleic Acid Atoms Solvent Atoms 165 Heterogen Atoms 6
Software Software Software Name Purpose MolProbity model building SHELX phasing REFMAC refinement XSCALE data scaling PDB_EXTRACT data extraction MAR345 data collection XDS data reduction SHELXD phasing autoSHARP phasing