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Crystal Structure of the ligand binding domain of the bacterial serine chemoreceptor Tsr
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 2LIG PDB ENTRY 2lig
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION 7.5 293 15-20% PEG 10000, 0.1M Tris HCl, pH 7.5, VAPOR DIFFUSION, temperature 293K
Crystal Properties Matthews coefficient Solvent content 2.16 42.96
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 42.48 α = 90 b = 55.06 β = 93.73 c = 73.33 γ = 90
Symmetry Space Group P 1 21 1
Diffraction Diffraction Experiment ID # Crystal ID Scattering Type Data Collection Temperature Detector Detector Type Details Collection Date Monochromator Protocol 1 1 x-ray 35 CCD ADSC QUANTUM 315 2005-04-20 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON SPRING-8 BEAMLINE BL41XU 0.972 SPring-8 BL41XU
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 1.95 43.85 98.8 0.056 4 24764 24467
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 1.95 2.06 98.2 0.219 5.9 4.1
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-Work (DCC) R-Free (Depositor) R-Free (DCC) R-Free Selection Details Mean Isotropic B X-RAY DIFFRACTION MOLECULAR REPLACEMENT THROUGHOUT PDB ENTRY 2lig 1.95 43.85 24453 23211 1242 98.52 0.21805 0.21805 0.21588 0.215 0.25854 0.2529 RANDOM 37.558
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] 2.69 1.23 -2.53
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_3_deg 18.764 r_scangle_it 4.778 r_dihedral_angle_1_deg 2.829 r_scbond_it 2.82 r_mcangle_it 1.707 r_angle_refined_deg 1.322 r_mcbond_it 0.914 r_xyhbond_nbd_refined 0.313 r_nbd_refined 0.263 r_symmetry_vdw_refined 0.22
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_3_deg 18.764 r_scangle_it 4.778 r_dihedral_angle_1_deg 2.829 r_scbond_it 2.82 r_mcangle_it 1.707 r_angle_refined_deg 1.322 r_mcbond_it 0.914 r_xyhbond_nbd_refined 0.313 r_nbd_refined 0.263 r_symmetry_vdw_refined 0.22 r_symmetry_hbond_refined 0.217 r_chiral_restr 0.083 r_bond_refined_d 0.013 r_gen_planes_refined 0.006 r_bond_other_d r_angle_other_deg r_dihedral_angle_2_deg r_dihedral_angle_4_deg r_gen_planes_other r_nbd_other r_nbtor_refined 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 2544 Nucleic Acid Atoms Solvent Atoms 424 Heterogen Atoms
Software Software Software Name Purpose REFMAC refinement MOSFLM data reduction CCP4 data scaling MOLREP phasing