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Structural base for cyclodextrin hydrolysis
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1H3G PDB ENTRY 1H3G
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 8.75 293 0.1M Tris, 17% PEG1500, pH8.75, VAPOR DIFFUSION, HANGING DROP, temperature 293K
Crystal Properties Matthews coefficient Solvent content 2.31 46.78
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 106.355 α = 90 b = 111.036 β = 90 c = 106.496 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 CCD MAR CCD 165 mm 2004-11-06 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON SLS BEAMLINE X06SA SLS X06SA
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Sym 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 1.71 20 99.9 0.068 5.6 136184 20.4
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R-Sym I (Observed) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 1.71 1.78 100 0.36 5.5
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-Work (DCC) R-Free (Depositor) R-Free (DCC) R-Free Selection Details Mean Isotropic B X-RAY DIFFRACTION MOLECULAR REPLACEMENT THROUGHOUT PDB ENTRY 1H3G 1.71 19.53 133456 2723 100 0.175 0.175 0.1722 0.202 0.1988 RANDOM 20.395
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 -0.02 0.01
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 33.493 r_dihedral_angle_4_deg 15.925 r_dihedral_angle_3_deg 14.185 r_dihedral_angle_1_deg 6.047 r_scangle_it 3.313 r_scbond_it 2.197 r_angle_refined_deg 1.445 r_mcangle_it 1.331 r_mcbond_it 0.888 r_nbtor_refined 0.307
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 33.493 r_dihedral_angle_4_deg 15.925 r_dihedral_angle_3_deg 14.185 r_dihedral_angle_1_deg 6.047 r_scangle_it 3.313 r_scbond_it 2.197 r_angle_refined_deg 1.445 r_mcangle_it 1.331 r_mcbond_it 0.888 r_nbtor_refined 0.307 r_symmetry_vdw_refined 0.216 r_nbd_refined 0.205 r_symmetry_hbond_refined 0.159 r_xyhbond_nbd_refined 0.131 r_chiral_restr 0.1 r_metal_ion_refined 0.064 r_bond_refined_d 0.015 r_gen_planes_refined 0.007 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_other r_symmetry_vdw_other r_symmetry_hbond_other r_symmetry_metal_ion_refined r_symmetry_metal_ion_other r_mcbond_other r_rigid_bond_restr r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 9540 Nucleic Acid Atoms Solvent Atoms 1160 Heterogen Atoms 40
Software Software Software Name Purpose REFMAC refinement PDB_EXTRACT data extraction MAR345dtb data collection XDS data reduction XSCALE data scaling PHASER phasing