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B.licheniformis Anti-TRAP can assemble into two types of dodecameric particles with the same symmetry but inverted orientation of trimers
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 2BX9 PDB entry 2bx9
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 6 293 0.1 M Bis-Tris buffer pH 5.5-6.0 and 23-27 % of poly(ethylene) glycol 3350, VAPOR DIFFUSION, HANGING DROP, temperature 293K
Crystal Properties Matthews coefficient Solvent content 2.42 49.09
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 108.076 α = 90 b = 108.076 β = 90 c = 49.37 γ = 120
Diffraction Diffraction Experiment ID # Crystal ID Scattering Type Data Collection Temperature Detector Detector Type Details Collection Date Monochromator Protocol 1 1 x-ray 120 IMAGE PLATE MAR scanner 345 mm plate 2005-05-01 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON ESRF BEAMLINE BM14 1.28 ESRF BM14
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 2.06 54 97.8 0.062 19.2 5.2 13298 13005 46.7
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 2.06 2.13 95.1 0.355 4.1 4.1 1265
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 (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 PDB entry 2bx9 2.06 28.76 12301 647 97.68 0.21661 0.21661 0.21309 0.2295 0.28578 0.2773 RANDOM 56.009
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] 0.01 0.01 0.01 -0.02
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 40.842 r_dihedral_angle_3_deg 12.493 r_dihedral_angle_4_deg 7.677 r_scangle_it 7.58 r_scbond_it 6.101 r_dihedral_angle_1_deg 3.94 r_mcangle_it 3.542 r_mcbond_it 2.597 r_angle_refined_deg 1.79 r_nbtor_refined 0.327
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 40.842 r_dihedral_angle_3_deg 12.493 r_dihedral_angle_4_deg 7.677 r_scangle_it 7.58 r_scbond_it 6.101 r_dihedral_angle_1_deg 3.94 r_mcangle_it 3.542 r_mcbond_it 2.597 r_angle_refined_deg 1.79 r_nbtor_refined 0.327 r_nbd_refined 0.3 r_xyhbond_nbd_refined 0.289 r_symmetry_vdw_refined 0.277 r_chiral_restr 0.147 r_symmetry_hbond_refined 0.143 r_bond_refined_d 0.012 r_gen_planes_refined 0.007 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 1592 Nucleic Acid Atoms Solvent Atoms 113 Heterogen Atoms 4
Software Software Software Name Purpose MOLREP phasing REFMAC refinement DENZO data reduction SCALEPACK data scaling