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Structure of TmCBM61 in complex with beta-1,4-galactotriose at 1.4 A resolution
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 2XOM PDB ENTRY 2XOM
Crystallization Crystal Properties Matthews coefficient Solvent content 2.35 47.75
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 48.9 α = 90 b = 61.85 β = 105.14 c = 55.53 γ = 90
Symmetry Space Group P 1 21 1
Diffraction Diffraction Experiment ID # Crystal ID Scattering Type Data Collection Temperature Detector Detector Type Details Collection Date Monochromator Protocol 1 1 x-ray 113 CCD ADSC CCD M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON SSRL BEAMLINE BL9-2 SSRL BL9-2
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 1.4 20 95.3 0.04 20.4 5.7 56801 2
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 1.4 1.48 77.9 0.18 7.6 5.2
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 2XOM 1.4 34.26 56801 3009 95.05 0.11904 0.11649 0.1296 0.16673 0.1721 RANDOM 11.778
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] 0.07 0.06 -0.01 -0.02
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 31.869 r_dihedral_angle_4_deg 13.738 r_sphericity_free 13.348 r_dihedral_angle_3_deg 13.029 r_dihedral_angle_1_deg 7.339 r_sphericity_bonded 6.417 r_scangle_it 5.773 r_scbond_it 4.325 r_mcangle_it 3.124 r_rigid_bond_restr 2.277
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 31.869 r_dihedral_angle_4_deg 13.738 r_sphericity_free 13.348 r_dihedral_angle_3_deg 13.029 r_dihedral_angle_1_deg 7.339 r_sphericity_bonded 6.417 r_scangle_it 5.773 r_scbond_it 4.325 r_mcangle_it 3.124 r_rigid_bond_restr 2.277 r_mcbond_it 2.252 r_angle_refined_deg 2.184 r_mcbond_other 1.235 r_angle_other_deg 1.098 r_chiral_restr 0.142 r_bond_refined_d 0.024 r_gen_planes_refined 0.012 r_bond_other_d 0.002 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_mcangle_other r_scbond_other r_scangle_other r_long_range_B_refined r_long_range_B_other
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 2350 Nucleic Acid Atoms Solvent Atoms 553 Heterogen Atoms 179
Software Software Software Name Purpose REFMAC refinement MOSFLM data reduction SCALA data scaling PHASER phasing