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Co-crystal structure of TraM-TraD complex.
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 2G07
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 8.5 298 30% PEG 2000, 100 mM tris HCl pH 8.5, 200 mM sodium acetate, VAPOR DIFFUSION, HANGING DROP, temperature 298K
Crystal Properties Matthews coefficient Solvent content 1.91 35.46
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 142.246 α = 90 b = 142.246 β = 90 c = 70.95 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 105 CCD ADSC QUANTUM 210 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON ALS BEAMLINE 8.3.1 1.11588 ALS 8.3.1
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (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 2.55 71.07 100 17494 17494
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 2.55 2.56 100
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-Free (Depositor) R-Free Selection Details Mean Isotropic B X-RAY DIFFRACTION MOLECULAR REPLACEMENT THROUGHOUT 2G07 2.55 17453 16609 884 99.95 0.21973 0.21973 0.21767 0.25746 RANDOM 41.975
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] 0.13 0.06 0.13 -0.19
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 34.775 r_dihedral_angle_4_deg 18.979 r_dihedral_angle_3_deg 16.934 r_dihedral_angle_1_deg 4.401 r_scangle_it 1.575 r_angle_refined_deg 1.058 r_scbond_it 0.997 r_mcangle_it 0.682 r_mcbond_it 0.392 r_nbtor_refined 0.299
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 34.775 r_dihedral_angle_4_deg 18.979 r_dihedral_angle_3_deg 16.934 r_dihedral_angle_1_deg 4.401 r_scangle_it 1.575 r_angle_refined_deg 1.058 r_scbond_it 0.997 r_mcangle_it 0.682 r_mcbond_it 0.392 r_nbtor_refined 0.299 r_nbd_refined 0.206 r_symmetry_vdw_refined 0.203 r_symmetry_hbond_refined 0.166 r_xyhbond_nbd_refined 0.119 r_chiral_restr 0.083 r_bond_refined_d 0.011 r_gen_planes_refined 0.003 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 4456 Nucleic Acid Atoms Solvent Atoms 12 Heterogen Atoms
Software Software Software Name Purpose REFMAC refinement Blu-Ice data collection DENZO data reduction SCALEPACK data scaling MOLREP phasing