☰ Navigation Tabs
Crystal structure of reducing-end-xylose releasing exo-oligoxylanase D263G mutant
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1WU4 PDB ENTRY 1WU4
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 4.6 293 PEG4000, SODIUM ACETATE, GLYCEROL, pH 4.6, VAPOR DIFFUSION, HANGING DROP, temperature 293K
Crystal Properties Matthews coefficient Solvent content 2.1 41.44
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 52.206 α = 90 b = 85.297 β = 90 c = 86.957 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 QUAMTUM 4r 2004-10-22 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON PHOTON FACTORY BEAMLINE BL-6A 1.0 Photon Factory BL-6A
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (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 2.1 60.858 96.2 0.069 20.54 4.1 23365 22498 14.2
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R-Sym I (Observed) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 2.1 2.18 98.1 0.128 8.8 4.1 2272
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Starting model 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 FOURIER SYNTHESIS THROUGHOUT PDB ENTRY 1WU4 2.1 44.77 21335 21335 1161 96.29 0.1448 0.1448 0.14222 0.1429 0.19376 0.193 RANDOM 11.387
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]
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 39.257 r_dihedral_angle_3_deg 14.401 r_dihedral_angle_4_deg 13.476 r_dihedral_angle_1_deg 5.94 r_scangle_it 3.423 r_scbond_it 2.28 r_mcangle_it 1.411 r_angle_refined_deg 1.337 r_mcbond_it 0.903 r_nbtor_refined 0.312
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 39.257 r_dihedral_angle_3_deg 14.401 r_dihedral_angle_4_deg 13.476 r_dihedral_angle_1_deg 5.94 r_scangle_it 3.423 r_scbond_it 2.28 r_mcangle_it 1.411 r_angle_refined_deg 1.337 r_mcbond_it 0.903 r_nbtor_refined 0.312 r_nbd_refined 0.2 r_symmetry_vdw_refined 0.196 r_xyhbond_nbd_refined 0.191 r_symmetry_hbond_refined 0.131 r_chiral_restr 0.099 r_bond_refined_d 0.015 r_gen_planes_refined 0.006 r_bond_other_d r_angle_other_deg r_gen_planes_other r_nbd_other r_nbtor_other r_xyhbond_nbd_other r_metal_ion_refined r_metal_ion_other r_symmetry_vdw_other r_symmetry_hbond_other r_symmetry_metal_ion_refined r_symmetry_metal_ion_other r_mcbond_other r_rigid_bond_restr r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 3088 Nucleic Acid Atoms Solvent Atoms 430 Heterogen Atoms 7
Software Software Software Name Purpose REFMAC refinement ADSC data collection HKL-2000 data scaling