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Structure of a CBM6 in complex with neoagarohexaose
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 2CDO PDB ENTRY 2CDO
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 7.5 2M NACL, 16-20% PEG 4000 BUFFERED TO PH 7.5 WITH TRIS/HCL
Crystal Properties Matthews coefficient Solvent content 2.49 51
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 53.72 α = 90 b = 54.996 β = 90 c = 195.908 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 113 IMAGE PLATE RIGAKU RAXIS-4 MULTIWIRE OPTICS M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 ROTATING ANODE RIGAKU MICROMAX-007
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 1.59 19.62 98.5 0.05 13.1 3.4 79215
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-Free (Depositor) R-Free (DCC) R-Free Selection Details Mean Isotropic B X-RAY DIFFRACTION MOLECULAR REPLACEMENT THROUGHOUT PDB ENTRY 2CDO 1.59 19.62 73859 3909 98.3 0.212 0.21 0.253 0.2407 RANDOM 21.77
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_2_deg 35.27 r_dihedral_angle_3_deg 12.289 r_dihedral_angle_1_deg 8.568 r_dihedral_angle_4_deg 4.217 r_scangle_it 3.193 r_scbond_it 2.365 r_angle_refined_deg 1.872 r_mcangle_it 1.616 r_mcbond_it 1.105 r_nbtor_refined 0.314
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 35.27 r_dihedral_angle_3_deg 12.289 r_dihedral_angle_1_deg 8.568 r_dihedral_angle_4_deg 4.217 r_scangle_it 3.193 r_scbond_it 2.365 r_angle_refined_deg 1.872 r_mcangle_it 1.616 r_mcbond_it 1.105 r_nbtor_refined 0.314 r_symmetry_hbond_refined 0.278 r_nbd_refined 0.214 r_symmetry_vdw_refined 0.193 r_xyhbond_nbd_refined 0.151 r_chiral_restr 0.142 r_bond_refined_d 0.018 r_gen_planes_refined 0.008 r_bond_other_d r_angle_other_deg r_gen_planes_other r_nbd_other r_nbtor_other r_xyhbond_nbd_other r_metal_ion_refined r_metal_ion_other r_symmetry_vdw_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 3905 Nucleic Acid Atoms Solvent Atoms 572 Heterogen Atoms 297
Software Software Software Name Purpose REFMAC refinement CrystalClear data reduction d*TREK data scaling