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Crystal structure of E. coli Holo-TrpB
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1BKS CHAIN B of 1BKS
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 micro batch using paraffin oil 8 288 ammonium sulfate, pH 8.0, micro batch using paraffin oil, temperature 288K
Crystal Properties Matthews coefficient Solvent content 4.12 70.15
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 172.516 α = 90 b = 172.516 β = 90 c = 82.587 γ = 120
Symmetry Space Group P 65 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 CCD Bruker DIP-6040 2003-09-26 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON SPRING-8 BEAMLINE BL44XU 0.9 SPring-8 BL44XU
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 2.9 74.4 96.8 0.076 4.7 15920 6.6 86.257
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 2.9 3.06 97.4 0.39 4.8 2297
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 (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 CHAIN B of 1BKS 2.9 30.33 15920 15901 800 96.2 0.196 0.196 0.1979 0.244 0.1912 RANDOM 60.3
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] 1.72 14.84 1.72 -3.45
RMS Deviations Key Refinement Restraint Deviation c_dihedral_angle_d 23.6 c_scangle_it 4.27 c_mcangle_it 2.92 c_scbond_it 2.9 c_mcbond_it 1.79 c_angle_deg 1.6 c_improper_angle_d 0.97 c_bond_d 0.009 c_bond_d_na c_bond_d_prot
RMS Deviations Key Refinement Restraint Deviation c_dihedral_angle_d 23.6 c_scangle_it 4.27 c_mcangle_it 2.92 c_scbond_it 2.9 c_mcbond_it 1.79 c_angle_deg 1.6 c_improper_angle_d 0.97 c_bond_d 0.009 c_bond_d_na c_bond_d_prot c_angle_d c_angle_d_na c_angle_d_prot c_angle_deg_na c_angle_deg_prot c_dihedral_angle_d_na c_dihedral_angle_d_prot c_improper_angle_d_na c_improper_angle_d_prot
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 2988 Nucleic Acid Atoms Solvent Atoms 9 Heterogen Atoms 31
Software Software Software Name Purpose CNS refinement MOSFLM data reduction CCP4 data scaling CNS phasing