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Structure of the endoglucanase Cel6 from Mycobacterium tuberculosis in complex with thiocellopentaose at 1.1 angstrom
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 7.5 14 % PEG 4K, 100 MM HEPES 7.5, 200 MM LISO4. THE PROTEIN WAS AT 10MG/ML AND INCUBATED WITH 1 MM OF THIOCELLOPENTAOSE FOR 1HR PRIOR. CRYSTALLISATION. 20% GLYCEROL WAS ADDED AS CRYOPROTECTANT, pH 7.50
Crystal Properties Matthews coefficient Solvent content 2.03 38.81
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 61.94 α = 90 b = 92.627 β = 90 c = 46.677 γ = 90
Symmetry Space Group P 21 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 ADSC CCD 2002-03-15 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON ESRF BEAMLINE ID14-2 ESRF ID14-2
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 1.1 51.2 99.7 0.075 17 5.1 109101 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 1.1 1.16 99.1 0.123 7.9 4.4
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 1TML 1.1 51.3 103639 5464 99.6 0.113 0.112 0.13 0.1621 RANDOM 7.85
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] 0.03 -0.14 0.11
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_1_deg 5.952 r_sphericity_free 5.355 r_sphericity_bonded 3.521 r_scangle_it 3.363 r_scbond_it 2.47 r_mcangle_it 1.939 r_angle_refined_deg 1.762 r_rigid_bond_restr 1.332 r_mcbond_it 1.318 r_angle_other_deg 0.938
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_1_deg 5.952 r_sphericity_free 5.355 r_sphericity_bonded 3.521 r_scangle_it 3.363 r_scbond_it 2.47 r_mcangle_it 1.939 r_angle_refined_deg 1.762 r_rigid_bond_restr 1.332 r_mcbond_it 1.318 r_angle_other_deg 0.938 r_symmetry_vdw_other 0.28 r_nbd_other 0.26 r_nbd_refined 0.231 r_symmetry_vdw_refined 0.15 r_symmetry_hbond_refined 0.149 r_xyhbond_nbd_refined 0.139 r_chiral_restr 0.112 r_nbtor_other 0.086 r_bond_refined_d 0.015 r_gen_planes_refined 0.01 r_gen_planes_other 0.008 r_bond_other_d 0.003 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
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 2199 Nucleic Acid Atoms Solvent Atoms 495 Heterogen Atoms 51
Software Software Software Name Purpose REFMAC refinement MOSFLM data reduction SCALA data scaling AMoRE phasing