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Structure of a family 4 carbohydrate esterase from Bacillus anthracis
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1W1B PDB ENTRY 1W1B
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 6.5 0.1 M CACODYLATE, PH 6.5, 0.2 M ZINC ACETATE, 18% POLYETHYLENE GLYCOL 8K
Crystal Properties Matthews coefficient Solvent content 2.6 53
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 56.927 α = 90 b = 56.927 β = 90 c = 158.531 γ = 120
Symmetry Space Group P 32 2 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 TOROIDAL MIRROR 2006-04-08 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON ESRF BEAMLINE ID14-3 ESRF ID14-3
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 1.7 30 99.2 0.07 25.6 5 33502
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 1.7 1.76 95.7 0.32 4.2 3.2
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 1W1B 1.7 30 31740 1697 99.2 0.188 0.186 0.1941 0.23 0.2437 RANDOM 24.01
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] 0.45 0.23 0.45 -0.68
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 34.271 r_dihedral_angle_3_deg 14.721 r_dihedral_angle_4_deg 12.094 r_dihedral_angle_1_deg 5.81 r_scangle_it 4.091 r_scbond_it 2.903 r_mcangle_it 2.323 r_mcbond_it 1.573 r_angle_refined_deg 1.4 r_angle_other_deg 0.922
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 34.271 r_dihedral_angle_3_deg 14.721 r_dihedral_angle_4_deg 12.094 r_dihedral_angle_1_deg 5.81 r_scangle_it 4.091 r_scbond_it 2.903 r_mcangle_it 2.323 r_mcbond_it 1.573 r_angle_refined_deg 1.4 r_angle_other_deg 0.922 r_mcbond_other 0.719 r_symmetry_vdw_other 0.25 r_nbd_refined 0.218 r_nbd_other 0.192 r_nbtor_refined 0.189 r_symmetry_vdw_refined 0.169 r_xyhbond_nbd_refined 0.14 r_symmetry_hbond_refined 0.127 r_metal_ion_refined 0.117 r_nbtor_other 0.086 r_symmetry_metal_ion_refined 0.086 r_chiral_restr 0.084 r_bond_refined_d 0.014 r_bond_other_d 0.007 r_gen_planes_refined 0.006 r_gen_planes_other 0.001 r_xyhbond_nbd_other r_metal_ion_other r_symmetry_hbond_other r_symmetry_metal_ion_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 1669 Nucleic Acid Atoms Solvent Atoms 179 Heterogen Atoms 17
Software Software Software Name Purpose REFMAC refinement DENZO data reduction SCALEPACK data scaling AMoRE phasing