☰ Navigation Tabs
Crystal structure of a putative oligoendopeptidase F from Bacillus anthracis str. Ames
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 3AHN
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 7 293 20%PEG 3350,0.2M K dihydrogen Phosphate, pH 7, VAPOR DIFFUSION, HANGING DROP, temperature 293K
Crystal Properties Matthews coefficient Solvent content 2.36 47.86
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 63.984 α = 90 b = 84.551 β = 90 c = 116.083 γ = 90
Symmetry Space Group P 21 21 21
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 QUANTUM 315r mirrors 2010-11-12 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON APS BEAMLINE 19-ID 0.9792 APS 19-ID
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge I (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 2.05 50 99.9 0.085 0.085 23.1 5.4 39935 39935 -3 29.5
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R Merge I (Observed) R-Sym I (Observed) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 2.05 2.09 99.9 0.7 0.7 2.3 5.3 1951
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Starting model Resolution (High) Resolution (Low) Number Reflections (All) Number Reflections (Observed) Number Reflections (R-Free) Percent Reflections (Observed) R-Factor (All) 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 3AHN 2.05 50 37877 37877 2000 99.76 0.18353 0.18353 0.18089 0.1875 0.23381 0.2377 RANDOM 35.818
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] -0.56 -2.19 2.75
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 35.905 r_dihedral_angle_4_deg 17.651 r_dihedral_angle_3_deg 14.497 r_dihedral_angle_1_deg 5.301 r_scangle_it 4.319 r_scbond_it 2.678 r_mcangle_it 1.501 r_angle_refined_deg 1.493 r_angle_other_deg 0.97 r_mcbond_it 0.844
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 35.905 r_dihedral_angle_4_deg 17.651 r_dihedral_angle_3_deg 14.497 r_dihedral_angle_1_deg 5.301 r_scangle_it 4.319 r_scbond_it 2.678 r_mcangle_it 1.501 r_angle_refined_deg 1.493 r_angle_other_deg 0.97 r_mcbond_it 0.844 r_mcbond_other 0.26 r_chiral_restr 0.099 r_bond_refined_d 0.019 r_gen_planes_refined 0.008 r_bond_other_d 0.006 r_gen_planes_other 0.001 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_rigid_bond_restr r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 4426 Nucleic Acid Atoms Solvent Atoms 378 Heterogen Atoms 16
Software Software Software Name Purpose HKL-3000 data collection HKL-3000 phasing MOLREP phasing REFMAC refinement Coot model building HKL-3000 data reduction HKL-3000 data scaling