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Mutant D416A of the CELLOBIOHYDROLASE CEL6A FROM HUMICOLA INSOLENS in complex with a THIOPENTASACCHARIDE at 1.3 angstrom resolution
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1GZ1 PDB ENTRY 1GZ1
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 4.6 PROTEIN WAS CONCENTRATED TO 10 MG/ML IN WATER. CRYSTALLISATION IN 200MM MAGNESIUM ACETATE IN 100MM SODIUM ACETATE BUFFER AT PH 4.6. PRECIPITANT WAS 20% POLYETHYLENE GLYCOL 5K MME.
Crystal Properties Matthews coefficient Solvent content 2.01 42
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 47.44 α = 90 b = 67.552 β = 110.87 c = 53.663 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 100 CCD ADSC CCD TORROIDAL MIRROR 2002-06-15 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON ESRF BEAMLINE ID14-1 ESRF ID14-1
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 1.3 30 90 0.068 16.7 3.6 79327
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 1.3 1.35 52.3 0.27 4.6 1.6
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 1GZ1 1.3 30 67142 3548 91 0.146 0.145 0.1587 0.174 0.1882 RANDOM 12.36
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] -0.59 -0.03 0.16 0.41
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_1_deg 6.037 r_scangle_it 3.844 r_scbond_it 2.669 r_mcangle_it 2.051 r_angle_refined_deg 1.701 r_mcbond_it 1.377 r_angle_other_deg 0.969 r_symmetry_vdw_other 0.258 r_nbd_other 0.249 r_nbd_refined 0.231
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_1_deg 6.037 r_scangle_it 3.844 r_scbond_it 2.669 r_mcangle_it 2.051 r_angle_refined_deg 1.701 r_mcbond_it 1.377 r_angle_other_deg 0.969 r_symmetry_vdw_other 0.258 r_nbd_other 0.249 r_nbd_refined 0.231 r_symmetry_hbond_refined 0.152 r_chiral_restr 0.146 r_symmetry_vdw_refined 0.145 r_xyhbond_nbd_refined 0.122 r_nbtor_other 0.085 r_gen_planes_refined 0.016 r_bond_refined_d 0.015 r_gen_planes_other 0.01 r_bond_other_d 0.002 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 r_rigid_bond_restr r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 2804 Nucleic Acid Atoms Solvent Atoms 402 Heterogen Atoms 76
Software Software Software Name Purpose REFMAC refinement DENZO data reduction SCALEPACK data scaling AMoRE phasing