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Crystal structure of a putative 2,3,4,5-tetrahydropyridine-2-carboxylate n-succinyltransferase (cj1605c, dapd) from campylobacter jejuni at 1.90 A resolution
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 6.5 277 NANODROP, 1.0M Na Citrate, 0.1M Cacodylate pH 6.5, VAPOR DIFFUSION, SITTING DROP, temperature 277K
Crystal Properties Matthews coefficient Solvent content 4.38 71.89
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 135.093 α = 90 b = 135.093 β = 90 c = 213.742 γ = 120
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 300 mm CCD Adjustable focusing mirrors in K-B geometry 2007-08-19 M MAD
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON APS BEAMLINE 23-ID-D 0.97957, 0.95373, 0.97942 APS 23-ID-D
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge I (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 1.9 29.54 100 0.124 0.124 4.1 7.5 59121 26.2
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R Merge I (Observed) R-Sym I (Observed) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 1.9 1.95 100 0.011 1.068 0.7 7.5 4335
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 (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 1.9 29.54 59119 2991 100 0.157 0.156 0.1602 0.185 0.1863 RANDOM 21.932
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] 1.28 0.64 1.28 -1.91
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 37.637 r_dihedral_angle_4_deg 18.951 r_dihedral_angle_3_deg 12.095 r_scangle_it 7.341 r_dihedral_angle_1_deg 5.982 r_scbond_it 5.439 r_mcangle_it 3.005 r_mcbond_it 2.274 r_angle_refined_deg 1.55 r_angle_other_deg 0.953
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 37.637 r_dihedral_angle_4_deg 18.951 r_dihedral_angle_3_deg 12.095 r_scangle_it 7.341 r_dihedral_angle_1_deg 5.982 r_scbond_it 5.439 r_mcangle_it 3.005 r_mcbond_it 2.274 r_angle_refined_deg 1.55 r_angle_other_deg 0.953 r_mcbond_other 0.567 r_symmetry_vdw_other 0.278 r_symmetry_vdw_refined 0.232 r_symmetry_hbond_refined 0.222 r_nbd_refined 0.196 r_nbd_other 0.187 r_nbtor_refined 0.176 r_xyhbond_nbd_refined 0.155 r_chiral_restr 0.096 r_nbtor_other 0.084 r_bond_refined_d 0.017 r_gen_planes_refined 0.007 r_bond_other_d 0.001 r_gen_planes_other 0.001
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 2904 Nucleic Acid Atoms Solvent Atoms 448 Heterogen Atoms 21
Software Software Software Name Purpose REFMAC refinement PHENIX refinement SHELX phasing MolProbity model building SCALA data scaling PDB_EXTRACT data extraction MAR345 data collection MOSFLM data reduction SHELXD phasing SHARP phasing