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The structure of AxCeSD octamer (C-terminal HIS-tag) from Acetobacter xylinum
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 2Z9E PDB ENTRY 2Z9E
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 EVAPORATION 5.4 293 0.2M LI2SO4, 0.1M PHOSPHATE-CITRATE pH 5.4, 10% (V/V) ISO-PROPANOL, EVAPORATION, temperature 293K
Crystal Properties Matthews coefficient Solvent content 3.32 62.96
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 133.351 α = 90 b = 133.351 β = 90 c = 217.759 γ = 90
Symmetry Space Group I 41 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 IMAGE PLATE RIGAKU RAXIS IV++ MIRRORS 2007-02-26 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 ROTATING ANODE RIGAKU MICROMAX-007 1.5418
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 2.7 50 99.8 0.061 0.061 20.9 8.7 27157 27157 65.2
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) 2.7 2.8 99.2 0.432 0.432 2.4 4.8
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-Work (DCC) R-Free (Depositor) R-Free (DCC) R-Free Selection Details Mean Isotropic B X-RAY DIFFRACTION MOLECULAR REPLACEMENT THROUGHOUT PDB ENTRY 2Z9E 2.7 19.8 24434 2691 100 0.21553 0.2089 0.2135 0.27551 0.2044 RANDOM 64.396
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] 0.98 0.98 -1.96
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 42.739 r_dihedral_angle_3_deg 23.359 r_dihedral_angle_4_deg 23.132 r_dihedral_angle_1_deg 8.003 r_scangle_it 3.462 r_scbond_it 2.052 r_angle_refined_deg 1.845 r_mcangle_it 1.617 r_mcbond_it 0.908 r_nbtor_refined 0.326
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 42.739 r_dihedral_angle_3_deg 23.359 r_dihedral_angle_4_deg 23.132 r_dihedral_angle_1_deg 8.003 r_scangle_it 3.462 r_scbond_it 2.052 r_angle_refined_deg 1.845 r_mcangle_it 1.617 r_mcbond_it 0.908 r_nbtor_refined 0.326 r_nbd_refined 0.274 r_symmetry_vdw_refined 0.23 r_symmetry_hbond_refined 0.229 r_xyhbond_nbd_refined 0.184 r_chiral_restr 0.128 r_bond_refined_d 0.017 r_gen_planes_refined 0.006 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_refined 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 4785 Nucleic Acid Atoms Solvent Atoms 261 Heterogen Atoms
Software Software Software Name Purpose HKL-2000 data collection MOLREP phasing REFMAC refinement HKL-2000 data reduction HKL-2000 data scaling