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Structure Of A Cold-Adapted Family 8 Xylanase
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1H13 PDB Entry: 1H13
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 5.6 277 PEG8000, sodium cacodylate, ammonium acetate, pH 5.6, VAPOR DIFFUSION, HANGING DROP, temperature 277K
Crystal Properties Matthews coefficient Solvent content 2.8 56.4
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 77.779 α = 90 b = 77.779 β = 90 c = 149.634 γ = 120
Symmetry Space Group P 31 2 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 MARRESEARCH 2005-02-03 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON EMBL/DESY, HAMBURG BEAMLINE X13 0.8034 EMBL/DESY, HAMBURG X13
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (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 3.2 12 93.3 8932 8337
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 3.2 3.27 94.9
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-Free (Depositor) R-Free (DCC) R-Free Selection Details Mean Isotropic B X-RAY DIFFRACTION MOLECULAR REPLACEMENT THROUGHOUT PDB Entry: 1H13 3.2 12 7938 7938 392 93.56 0.21882 0.21882 0.21607 0.276 0.223 RANDOM 26.668
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] 4.64 2.32 4.64 -6.96
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_1_deg 5.569 r_scangle_it 1.544 r_angle_refined_deg 1.08 r_mcangle_it 0.889 r_scbond_it 0.887 r_mcbond_it 0.471 r_symmetry_vdw_refined 0.288 r_symmetry_hbond_refined 0.257 r_nbd_refined 0.219 r_xyhbond_nbd_refined 0.16
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_1_deg 5.569 r_scangle_it 1.544 r_angle_refined_deg 1.08 r_mcangle_it 0.889 r_scbond_it 0.887 r_mcbond_it 0.471 r_symmetry_vdw_refined 0.288 r_symmetry_hbond_refined 0.257 r_nbd_refined 0.219 r_xyhbond_nbd_refined 0.16 r_chiral_restr 0.077 r_bond_refined_d 0.008 r_gen_planes_refined 0.003
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 3203 Nucleic Acid Atoms Solvent Atoms 57 Heterogen Atoms
Software Software Software Name Purpose REFMAC refinement DENZO data reduction SCALEPACK data scaling AMoRE phasing