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Crystal structure of Homoserine O-succinyltransferase (EC 2.3.1.46) (Homoserine O-transsuccinylase) (HTS) (tm0881) from THERMOTOGA MARITIMA at 2.52 A resolution
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 2GHR
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION,SITTING DROP,NANODROP 8 293 10.0% iso-Propanol, 0.1M Imidazole pH 8.0, VAPOR DIFFUSION,SITTING DROP,NANODROP, temperature 293K
Crystal Properties Matthews coefficient Solvent content 2.88 56.96
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 72.609 α = 90 b = 72.609 β = 90 c = 126.913 γ = 120
Symmetry Space Group P 31 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 QUANTUM 210 2003-09-21 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON ALS BEAMLINE 8.2.1 1.0000 ALS 8.2.1
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 2.52 42.3 99.9 0.046 18.5 10.98 13643 70.22
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 2.52 2.61 99.7 99.7 0.387 6.1
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) R-Free Selection Details Mean Isotropic B X-RAY DIFFRACTION MOLECULAR REPLACEMENT THROUGHOUT 2GHR 2.52 42.3 12573 613 92.36 0.194 0.19 0.2002 0.274 0.2706 RANDOM 44.358
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] 1.98 0.99 1.98 -2.97
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 29.477 r_dihedral_angle_4_deg 17.047 r_dihedral_angle_3_deg 14.03 r_dihedral_angle_1_deg 6.054 r_scangle_it 4.237 r_scbond_it 3.013 r_mcangle_it 2.749 r_mcbond_it 1.859 r_angle_refined_deg 1.211 r_angle_other_deg 0.62
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 29.477 r_dihedral_angle_4_deg 17.047 r_dihedral_angle_3_deg 14.03 r_dihedral_angle_1_deg 6.054 r_scangle_it 4.237 r_scbond_it 3.013 r_mcangle_it 2.749 r_mcbond_it 1.859 r_angle_refined_deg 1.211 r_angle_other_deg 0.62 r_mcbond_other 0.44 r_symmetry_vdw_other 0.282 r_symmetry_hbond_refined 0.262 r_nbd_refined 0.228 r_nbd_other 0.217 r_nbtor_refined 0.202 r_xyhbond_nbd_refined 0.199 r_nbtor_other 0.093 r_symmetry_vdw_refined 0.093 r_chiral_restr 0.07 r_bond_refined_d 0.009 r_gen_planes_refined 0.004 r_bond_other_d 0.001 r_gen_planes_other
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 2373 Nucleic Acid Atoms Solvent Atoms 16 Heterogen Atoms
Software Software Software Name Purpose PHASER phasing MolProbity model building REFMAC refinement SCALEPACK data scaling PDB_EXTRACT data extraction DENZO data reduction