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Crystal structure of Ornithine carbamoyltransferase (TM1097) from Thermotoga maritima at 2.25 A resolution
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1A1S
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION,SITTING DROP,NANODROP 6.1 293 0.2% MPD, 0.2M NH4OAc, 0.1M Na,K-Phosphate pH 6.1, VAPOR DIFFUSION,SITTING DROP,NANODROP, temperature 293K
Crystal Properties Matthews coefficient Solvent content 2.75 54.99
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 210.339 α = 90 b = 210.339 β = 90 c = 210.339 γ = 90
Symmetry Space Group F 4 3 2
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 2003-09-20 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON ALS BEAMLINE 8.2.1 ALS 8.2.1
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (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 2.25 63.32 99.8 0.071 15.7 6.9 19349 58.84
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R-Sym I (Observed) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 2.25 2.31 98.1 0.734 5014 4.2 1366
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 1a1s 2.25 63.32 18186 986 98.83 0.19049 0.18917 0.1954 0.21528 0.2236 RANDOM 47.765
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]
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 35.407 r_dihedral_angle_4_deg 24.321 r_dihedral_angle_3_deg 14.655 r_dihedral_angle_1_deg 7.118 r_scangle_it 2.735 r_scbond_it 1.823 r_angle_refined_deg 1.576 r_mcangle_it 1.149 r_angle_other_deg 0.882 r_mcbond_it 0.731
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 35.407 r_dihedral_angle_4_deg 24.321 r_dihedral_angle_3_deg 14.655 r_dihedral_angle_1_deg 7.118 r_scangle_it 2.735 r_scbond_it 1.823 r_angle_refined_deg 1.576 r_mcangle_it 1.149 r_angle_other_deg 0.882 r_mcbond_it 0.731 r_symmetry_vdw_other 0.286 r_symmetry_hbond_refined 0.232 r_nbd_refined 0.214 r_symmetry_vdw_refined 0.192 r_nbd_other 0.182 r_nbtor_refined 0.177 r_mcbond_other 0.154 r_xyhbond_nbd_refined 0.151 r_nbtor_other 0.087 r_chiral_restr 0.086 r_bond_refined_d 0.015 r_gen_planes_refined 0.005 r_bond_other_d 0.001 r_gen_planes_other 0.001
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 2404 Nucleic Acid Atoms Solvent Atoms 94 Heterogen Atoms 15
Software Software Software Name Purpose MOSFLM data reduction SCALA data scaling MOLREP phasing REFMAC refinement CCP4 data scaling