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The Structure of a family 25 Glycosyl hydrolase from Bacillus anthracis.
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1JFX PDB ENTRY 1JFX
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 8.5 2.1M NH4 SO4, 0.1M TRIS PH 8.5.
Crystal Properties Matthews coefficient Solvent content 3.1 61
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 100.522 α = 90 b = 100.521 β = 90 c = 106.72 γ = 120
Symmetry Space Group P 61 2 2
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 2006-03-18 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 1.4 87 99.9 0.07 6.4 16.3 62904 6
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 1.4 1.8 100 0.432 20 11.8
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 1JFX 1.4 33.73 59675 3191 99.76 0.18859 0.18733 0.21217 0.1768 RANDOM 15.423
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] 0.06 0.03 0.06 -0.09
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 38.498 r_dihedral_angle_4_deg 14.181 r_dihedral_angle_3_deg 12.91 r_dihedral_angle_1_deg 6.23 r_sphericity_free 4.97 r_sphericity_bonded 4.296 r_scangle_it 4.153 r_scbond_it 2.978 r_mcangle_it 1.863 r_rigid_bond_restr 1.689
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 38.498 r_dihedral_angle_4_deg 14.181 r_dihedral_angle_3_deg 12.91 r_dihedral_angle_1_deg 6.23 r_sphericity_free 4.97 r_sphericity_bonded 4.296 r_scangle_it 4.153 r_scbond_it 2.978 r_mcangle_it 1.863 r_rigid_bond_restr 1.689 r_angle_refined_deg 1.614 r_mcbond_it 1.169 r_chiral_restr 0.346 r_bond_refined_d 0.011 r_gen_planes_refined 0.008 r_bond_other_d r_angle_other_deg r_gen_planes_other r_nbd_refined r_nbd_other r_nbtor_refined r_nbtor_other r_xyhbond_nbd_refined r_xyhbond_nbd_other r_metal_ion_refined r_metal_ion_other r_symmetry_vdw_refined r_symmetry_vdw_other r_symmetry_hbond_refined 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 1815 Nucleic Acid Atoms Solvent Atoms 372 Heterogen Atoms 71
Software Software Software Name Purpose REFMAC refinement MOSFLM data reduction SCALA data scaling AMoRE phasing