☰ Navigation Tabs
N-terminal domain of putative saccharopine dehydrogenase from Ruegeria pomeroyi.
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 8.5 277 0.1 M Tris buffer, 20% ethanol, 5% PEG-400, pH 8.5, VAPOR DIFFUSION, SITTING DROP, temperature 277K
Crystal Properties Matthews coefficient Solvent content 2.34 47.37
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 54.368 α = 90 b = 57.803 β = 90 c = 73.184 γ = 90
Symmetry Space Group P 21 21 21
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 315 2009-05-30 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON APS BEAMLINE 19-ID 0.9792 APS 19-ID
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 2.08 45.4 100 0.085 12.7 12.3 14419 14419 42.3
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 2.08 2.12 100 0.786 3.22 7.2 691
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Resolution (High) Resolution (Low) Number Reflections (All) 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 SAD THROUGHOUT 2.08 45.36 14349 14349 722 99.77 0.197 0.197 0.195 0.2037 0.251 0.2545 RANDOM 28.092
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] 1.78 0.08 -1.87
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 34.385 r_dihedral_angle_4_deg 26.981 r_dihedral_angle_3_deg 14.871 r_dihedral_angle_1_deg 6.122 r_scangle_it 3.723 r_scbond_it 2.408 r_angle_refined_deg 1.557 r_mcangle_it 1.465 r_angle_other_deg 0.951 r_mcbond_it 0.843
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 34.385 r_dihedral_angle_4_deg 26.981 r_dihedral_angle_3_deg 14.871 r_dihedral_angle_1_deg 6.122 r_scangle_it 3.723 r_scbond_it 2.408 r_angle_refined_deg 1.557 r_mcangle_it 1.465 r_angle_other_deg 0.951 r_mcbond_it 0.843 r_mcbond_other 0.228 r_chiral_restr 0.097 r_bond_refined_d 0.017 r_gen_planes_refined 0.006 r_bond_other_d 0.001 r_gen_planes_other 0.001
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 1663 Nucleic Acid Atoms Solvent Atoms 118 Heterogen Atoms
Software Software Software Name Purpose DENZO data reduction SCALEPACK data scaling REFMAC refinement PDB_EXTRACT data extraction SBC-Collect data collection HKL-3000 data reduction HKL-3000 data scaling SHELXD phasing MLPHARE phasing DM phasing SOLVE phasing RESOLVE phasing HKL-3000 phasing