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Crystal structure of ENZbleach xylanase V5N+V6N+K7R+K223R+K227R mutant
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 5GV1
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 MICROBATCH 5 298 PEG 6000, 0.1 M NaOAc, 0.2 M NaCl
Crystal Properties Matthews coefficient Solvent content 2.18 43.62
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 42.501 α = 79.57 b = 46.25 β = 83.1 c = 78.204 γ = 66.25
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 Nonius Kappa CCD 2014-12-23 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 ROTATING ANODE ENRAF-NONIUS FR591 1.54
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 1.93 30 93.9 0.033 23.9 2.9 37834
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 1.93 2 83.2 0.101 2.3
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Starting model 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 MOLECULAR REPLACEMENT THROUGHOUT 5GV1 1.93 30 35939 1895 94.32 0.1684 0.1659 0.1662 0.2176 0.2174 RANDOM 14.73
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] -0.42 0.53 -0.46 0.62 0.01 -0.03
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 34.906 r_dihedral_angle_4_deg 15.365 r_dihedral_angle_3_deg 13.685 r_dihedral_angle_1_deg 7.14 r_mcangle_it 1.467 r_angle_refined_deg 1.375 r_scbond_it 0.998 r_mcbond_it 0.85 r_chiral_restr 0.098 r_bond_refined_d 0.011
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 34.906 r_dihedral_angle_4_deg 15.365 r_dihedral_angle_3_deg 13.685 r_dihedral_angle_1_deg 7.14 r_mcangle_it 1.467 r_angle_refined_deg 1.375 r_scbond_it 0.998 r_mcbond_it 0.85 r_chiral_restr 0.098 r_bond_refined_d 0.011 r_gen_planes_refined 0.006
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 4310 Nucleic Acid Atoms Solvent Atoms 679 Heterogen Atoms
Software Software Software Name Purpose DENZO data collection HKL-2000 data scaling PHASER phasing REFMAC refinement PDB_EXTRACT data extraction