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Crystal Structures of Clostridium thermocellum Xyloglucanase
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 2CN2 PDB ENTRY 2CN2
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 20% PEG3350, HEPES PH 7.5, 0.2M KSCN
Crystal Properties Matthews coefficient Solvent content 3.03 59
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 141.44 α = 90 b = 141.44 β = 90 c = 193.393 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 120 CCD MARRESEARCH 2005-07-01 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON ESRF BEAMLINE ID23-1 ESRF ID23-1
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 1.95 57.07 100 0.15 14.3 11.5 142508 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 1.95 2.06 100 0.53 4.6 11.5
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 2CN2 1.95 19.96 135190 7146 100 0.18 0.178 0.204 0.1981 RANDOM 15.64
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] 0.01
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 34.579 r_dihedral_angle_4_deg 16.194 r_dihedral_angle_3_deg 13.021 r_dihedral_angle_1_deg 9.503 r_scangle_it 2.025 r_angle_refined_deg 1.375 r_scbond_it 1.302 r_mcangle_it 0.875 r_mcbond_it 0.558 r_nbtor_refined 0.31
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 34.579 r_dihedral_angle_4_deg 16.194 r_dihedral_angle_3_deg 13.021 r_dihedral_angle_1_deg 9.503 r_scangle_it 2.025 r_angle_refined_deg 1.375 r_scbond_it 1.302 r_mcangle_it 0.875 r_mcbond_it 0.558 r_nbtor_refined 0.31 r_nbd_refined 0.194 r_symmetry_vdw_refined 0.162 r_xyhbond_nbd_refined 0.111 r_symmetry_hbond_refined 0.11 r_chiral_restr 0.104 r_bond_refined_d 0.009 r_gen_planes_refined 0.004 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 11292 Nucleic Acid Atoms Solvent Atoms 1228 Heterogen Atoms 345
Software Software Software Name Purpose REFMAC refinement MOSFLM data reduction SCALA data scaling PHASER phasing