☰ Navigation Tabs
Crystal structure of a putative yden-like hydrolase (eca3091) from pectobacterium atrosepticum scri1043 at 1.66 A resolution
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 8 277 NANODROP, 0.2M Ca(OAc)2, 10.0% PEG 8000, 0.1M Imidazole pH 8.0, VAPOR DIFFUSION, SITTING DROP, temperature 277K
Crystal Properties Matthews coefficient Solvent content 1.96 37.15
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 35.655 α = 90 b = 93.302 β = 90 c = 104.095 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 MARMOSAIC 300 mm CCD Adjustable focusing mirrors in K-B geometry 2007-10-26 M MAD
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON APS BEAMLINE 23-ID-D 0.91840, 0.97953, 0.97939 APS 23-ID-D
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 1.66 42.563 99.7 0.069 10.16 41954 -3 19.61
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 1.66 1.72 99.7 0.539 2.4
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-Free (Depositor) R-Free (DCC) R-Free Selection Details Mean Isotropic B X-RAY DIFFRACTION MAD THROUGHOUT 1.66 42.563 41889 2112 99.75 0.173 0.17 0.213 0.2246 RANDOM 19.964
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] 0.67 -1.48 0.81
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 36.857 r_dihedral_angle_3_deg 13.691 r_dihedral_angle_4_deg 13.559 r_scangle_it 5.683 r_dihedral_angle_1_deg 5.114 r_scbond_it 4.183 r_mcangle_it 2.698 r_mcbond_it 1.962 r_angle_refined_deg 1.485 r_angle_other_deg 0.991
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 36.857 r_dihedral_angle_3_deg 13.691 r_dihedral_angle_4_deg 13.559 r_scangle_it 5.683 r_dihedral_angle_1_deg 5.114 r_scbond_it 4.183 r_mcangle_it 2.698 r_mcbond_it 1.962 r_angle_refined_deg 1.485 r_angle_other_deg 0.991 r_mcbond_other 0.657 r_symmetry_vdw_other 0.296 r_nbd_refined 0.221 r_nbd_other 0.214 r_symmetry_vdw_refined 0.213 r_nbtor_refined 0.183 r_xyhbond_nbd_refined 0.167 r_symmetry_hbond_refined 0.142 r_chiral_restr 0.096 r_metal_ion_refined 0.092 r_symmetry_metal_ion_refined 0.089 r_nbtor_other 0.086 r_bond_refined_d 0.016 r_gen_planes_refined 0.007 r_bond_other_d 0.002 r_gen_planes_other 0.001
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 2997 Nucleic Acid Atoms Solvent Atoms 295 Heterogen Atoms 21
Software Software Software Name Purpose REFMAC refinement PHENIX refinement SHELX phasing MolProbity model building XSCALE data scaling PDB_EXTRACT data extraction MAR345 data collection XDS data reduction autoSHARP phasing