☰ Navigation Tabs
High-resolution crystal structure of activated Cyt2Ba monomer from Bacillus thuringiensis subsp. israelensis
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1CBY PDB entry 1CBY
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 MICROBATCH 7 293 1M Na/K Tartrate, 0.1M Tris-HCl pH 7.0, 0.2M Li2SO4, MICROBATCH, temperature 293K
Crystal Properties Matthews coefficient Solvent content 2.02 39.15
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 83.481 α = 90 b = 43.259 β = 112.44 c = 55.65 γ = 90
Symmetry Space Group C 1 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 IMAGE PLATE RIGAKU 2006-09-15 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 ROTATING ANODE RIGAKU RU300 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 1.8 50 97.4 0.075 0.103 16.5 16805 16805
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 1CBY 1.8 50 15956 849 96.98 0.1884 0.18696 0.1851 0.21613 0.1988 RANDOM 21.831
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] 1.01 1.42 0.05 0.03
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 40.825 r_dihedral_angle_3_deg 12.805 r_dihedral_angle_4_deg 9.812 r_dihedral_angle_1_deg 6.358 r_scangle_it 3.605 r_scbond_it 2.336 r_angle_refined_deg 1.426 r_mcangle_it 1.408 r_mcbond_it 0.865 r_nbtor_refined 0.307
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 40.825 r_dihedral_angle_3_deg 12.805 r_dihedral_angle_4_deg 9.812 r_dihedral_angle_1_deg 6.358 r_scangle_it 3.605 r_scbond_it 2.336 r_angle_refined_deg 1.426 r_mcangle_it 1.408 r_mcbond_it 0.865 r_nbtor_refined 0.307 r_nbd_refined 0.214 r_xyhbond_nbd_refined 0.189 r_symmetry_vdw_refined 0.187 r_symmetry_hbond_refined 0.169 r_chiral_restr 0.109 r_bond_refined_d 0.015 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 1497 Nucleic Acid Atoms Solvent Atoms 112 Heterogen Atoms
Software Software Software Name Purpose REFMAC refinement HKL-2000 data collection HKL-2000 data reduction HKL-2000 data scaling BALBES phasing