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The Structure of Bacillus pumilus GH48 in complex with cellobiose and cellohexaose
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1G9G PDB entry 1G9G
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 293 2-3 M sodium malonate, pH 5.0-7.0, 20 mM cellobiose
Crystal Properties Matthews coefficient Solvent content 3.39 63.7
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 98.041 α = 90 b = 98.041 β = 90 c = 218.956 γ = 90
Symmetry Space Group P 43 21 2
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 Bruker Platinum 135 2011-05-06 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 ROTATING ANODE BRUKER AXS MICROSTAR 1.54188
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 2 50 99 0.1231 14.8 7.63 72223
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 2 2.1 93.8 0.4382 3.55 4.71
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 PDB entry 1G9G 2 50 67342 3584 97.33 0.14787 0.14568 0.1573 0.1888 0.1971 RANDOM 16.556
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] 0.46 0.46 -0.92
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 36.971 r_dihedral_angle_4_deg 17.741 r_dihedral_angle_3_deg 14.497 r_dihedral_angle_1_deg 6.889 r_long_range_B_refined 6.75 r_long_range_B_other 6.293 r_scangle_other 3.796 r_scbond_it 2.374 r_scbond_other 2.373 r_mcangle_it 2.324
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 36.971 r_dihedral_angle_4_deg 17.741 r_dihedral_angle_3_deg 14.497 r_dihedral_angle_1_deg 6.889 r_long_range_B_refined 6.75 r_long_range_B_other 6.293 r_scangle_other 3.796 r_scbond_it 2.374 r_scbond_other 2.373 r_mcangle_it 2.324 r_mcangle_other 2.324 r_angle_refined_deg 1.849 r_mcbond_it 1.488 r_mcbond_other 1.484 r_angle_other_deg 1.091 r_chiral_restr 0.115 r_bond_refined_d 0.019 r_gen_planes_refined 0.01 r_bond_other_d 0.004 r_gen_planes_other 0.002 r_nbd_refined r_nbd_other r_nbtor_refined r_nbtor_other r_xyhbond_nbd_refined r_xyhbond_nbd_other r_metal_ion_refined r_metal_ion_other r_symmetry_vdw_refined r_symmetry_vdw_other r_symmetry_hbond_refined r_symmetry_hbond_other r_symmetry_metal_ion_refined r_symmetry_metal_ion_other r_scangle_it r_rigid_bond_restr r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 5581 Nucleic Acid Atoms Solvent Atoms 794 Heterogen Atoms 207
Software Software Software Name Purpose REFMAC refinement MOLREP phasing Coot model building