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Catalytic domain of endo-1,4-glucanase Cel6A mutant Y73S from Thermobifida fusca in complex with cellotetrose
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1TML PDB ENTRY 1TML
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 20-30% POLYETHYLENGLYCOL 4000 AND 0.15-0.34 M SODIUM MALONATE, PH 4.0
Crystal Properties Matthews coefficient Solvent content 2 36.6
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 42.958 α = 90 b = 66.948 β = 90 c = 81.527 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 MARRESEARCH SI MIRROR COATED WITH PLATINUM 2003-05-21 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON MAX II BEAMLINE I711 MAX II I711
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 1.64 52 99.6 0.07 0.061 15.6 4.1 28960 6
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 1.64 1.73 97.1 0.2 0.174 6.3 3.9
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 Selection Details Mean Isotropic B X-RAY DIFFRACTION MOLECULAR REPLACEMENT THROUGHOUT PDB ENTRY 1TML 1.64 51.99 27911 1495 99.6 0.158 0.157 0.1734 0.186 RANDOM 12.62
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_1_deg 5.457 r_scangle_it 3.119 r_scbond_it 1.878 r_angle_refined_deg 1.277 r_mcangle_it 1.176 r_angle_other_deg 0.813 r_mcbond_it 0.634 r_nbd_other 0.247 r_symmetry_vdw_other 0.216 r_nbd_refined 0.202
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_1_deg 5.457 r_scangle_it 3.119 r_scbond_it 1.878 r_angle_refined_deg 1.277 r_mcangle_it 1.176 r_angle_other_deg 0.813 r_mcbond_it 0.634 r_nbd_other 0.247 r_symmetry_vdw_other 0.216 r_nbd_refined 0.202 r_symmetry_hbond_refined 0.152 r_symmetry_vdw_refined 0.15 r_xyhbond_nbd_refined 0.135 r_nbtor_other 0.08 r_chiral_restr 0.073 r_bond_refined_d 0.01 r_gen_planes_refined 0.004 r_gen_planes_other 0.003 r_bond_other_d 0.002 r_dihedral_angle_2_deg r_dihedral_angle_3_deg r_dihedral_angle_4_deg r_nbtor_refined r_xyhbond_nbd_other r_metal_ion_refined r_metal_ion_other r_symmetry_hbond_other r_symmetry_metal_ion_refined r_symmetry_metal_ion_other r_mcbond_other r_mcangle_other r_scbond_other r_scangle_other r_long_range_B_refined r_long_range_B_other r_rigid_bond_restr r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 2080 Nucleic Acid Atoms Solvent Atoms 273 Heterogen Atoms 45
Software Software Software Name Purpose REFMAC refinement MOSFLM data reduction SCALA data scaling AMoRE phasing