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Structure of a bacterial peptide pheromone/receptor complex and its mechanism of gene regulation
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 2AWI pdb entry 2AWI
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 EVAPORATION 7 298 PEG4000, citrate-phosphate, pH 7.0, EVAPORATION, temperature 298K
Crystal Properties Matthews coefficient Solvent content 2.6 53.2
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 82.546 α = 90 b = 82.546 β = 90 c = 380.156 γ = 120
Symmetry Space Group P 61 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 2005-03-02 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON ALS BEAMLINE 4.2.2 ALS 4.2.2
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 3 47.42 94.9 0.126 10 5.97 16419 1.2 1.5
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) 3 3.11 94.9 0.415 2.1
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 2AWI 3 30 14829 784 95.27 0.21435 0.21194 0.21 0.25987 0.2388 RANDOM 54.506
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] 1.33 0.67 1.33 -2
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 38.46 r_dihedral_angle_3_deg 18.232 r_dihedral_angle_4_deg 17.412 r_dihedral_angle_1_deg 4.404 r_angle_refined_deg 1.08 r_nbtor_refined 0.312 r_nbd_refined 0.22 r_symmetry_hbond_refined 0.209 r_symmetry_vdw_refined 0.158 r_xyhbond_nbd_refined 0.124
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 38.46 r_dihedral_angle_3_deg 18.232 r_dihedral_angle_4_deg 17.412 r_dihedral_angle_1_deg 4.404 r_angle_refined_deg 1.08 r_nbtor_refined 0.312 r_nbd_refined 0.22 r_symmetry_hbond_refined 0.209 r_symmetry_vdw_refined 0.158 r_xyhbond_nbd_refined 0.124 r_chiral_restr 0.078 r_bond_refined_d 0.008 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_it r_mcbond_other r_mcangle_it r_scbond_it r_scangle_it r_rigid_bond_restr r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 4841 Nucleic Acid Atoms Solvent Atoms 25 Heterogen Atoms
Software Software Software Name Purpose REFMAC refinement CNS refinement PDB_EXTRACT data extraction d*TREK data scaling d*TREK data processing