☰ Navigation Tabs
Crystal structure of a putative xylanase from Bacteroides fragilis
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION 6.5 294 100mM Bis-Tris pH 6.5, 28% PEG MME 2000, VAPOR DIFFUSION, temperature 294K
Crystal Properties Matthews coefficient Solvent content 2.18 43.67
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 51.645 α = 90 b = 65.83 β = 103.84 c = 74.061 γ = 90
Symmetry Space Group P 1 21 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 MAR CCD 165 mm 2007-03-01 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON APS BEAMLINE 31-ID 0.97958 APS 31-ID
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 1.8 22.011 99.1 0.157 0.157 10.1 5.3 44349 15
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 1.8 1.9 98.4 0.368 0.368 3.9 5.3 6376
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 SAD THROUGHOUT 1.8 20 44325 2229 99.04 0.169 0.167 0.169 0.214 0.217 RANDOM 17.875
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] 0.41 0.49 -0.34 0.17
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 32.376 r_dihedral_angle_4_deg 17.625 r_dihedral_angle_3_deg 12.272 r_dihedral_angle_1_deg 5.387 r_scangle_it 4.043 r_scbond_it 2.639 r_mcangle_it 1.47 r_angle_refined_deg 1.282 r_mcbond_it 0.946 r_nbtor_refined 0.307
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 32.376 r_dihedral_angle_4_deg 17.625 r_dihedral_angle_3_deg 12.272 r_dihedral_angle_1_deg 5.387 r_scangle_it 4.043 r_scbond_it 2.639 r_mcangle_it 1.47 r_angle_refined_deg 1.282 r_mcbond_it 0.946 r_nbtor_refined 0.307 r_symmetry_hbond_refined 0.293 r_symmetry_vdw_refined 0.277 r_xyhbond_nbd_refined 0.203 r_nbd_refined 0.199 r_chiral_restr 0.09 r_bond_refined_d 0.012 r_gen_planes_refined 0.005
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 3601 Nucleic Acid Atoms Solvent Atoms 519 Heterogen Atoms
Software Software Software Name Purpose SCALA data scaling REFMAC refinement PDB_EXTRACT data extraction MAR345 data collection MOSFLM data reduction CCP4 data scaling SHELXD phasing