☰ Navigation Tabs
Crystal structure of a loop truncation variant of Thermotoga maritima Acetyl Esterase TM0077 (apo structure) at 2.75 Angstrom resolution
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 5FDF
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 7.5 295 Reservoir solution is composed of 35%(V/V) Pentaerythritolpropoxylate (5/4 PO/OH), 200mM potassium chloride, 50mM HEPES pH 7.5
Crystal Properties Matthews coefficient Solvent content 2.67 53.85
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 155.08 α = 90 b = 155.08 β = 90 c = 165.1 γ = 120
Symmetry Space Group P 31 2 1
Diffraction Diffraction Experiment ID # Crystal ID Scattering Type Data Collection Temperature Detector Detector Type Details Collection Date Monochromator Protocol 1 1 x-ray 100 IMAGE PLATE MAR scanner 345 mm plate 2013-06-16 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 ROTATING ANODE BRUKER AXS MICROSTAR 1.5418
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge I (Observed) Rpim I (All) CC (Half) 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 2.75 52.09 100 0.145 0.046 0.997 14.7 10.5 60062 62.65
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R Merge I (Observed) Rpim I (All) CC (Half) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 2.75 2.82 100 1.174 0.408 0.716 2.2 8.9 4413
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 5FDF 2.75 52.09 56965 3028 99.92 0.1997 0.1981 0.2049 0.2306 0.2363 RANDOM 53.878
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] -0.44 -0.22 -0.44 1.43
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 30.734 r_dihedral_angle_4_deg 15.42 r_dihedral_angle_3_deg 13.752 r_dihedral_angle_1_deg 6.397 r_mcangle_it 1.825 r_angle_refined_deg 1.816 r_angle_other_deg 1.677 r_mcbond_it 1.087 r_mcbond_other 1.085 r_chiral_restr 0.104
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 30.734 r_dihedral_angle_4_deg 15.42 r_dihedral_angle_3_deg 13.752 r_dihedral_angle_1_deg 6.397 r_mcangle_it 1.825 r_angle_refined_deg 1.816 r_angle_other_deg 1.677 r_mcbond_it 1.087 r_mcbond_other 1.085 r_chiral_restr 0.104 r_bond_refined_d 0.019 r_gen_planes_refined 0.013 r_bond_other_d 0.012 r_gen_planes_other 0.011
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 13211 Nucleic Acid Atoms Solvent Atoms 85 Heterogen Atoms
Software Software Software Name Purpose MAR345dtb data collection Aimless data scaling REFMAC refinement PDB_EXTRACT data extraction MOSFLM data reduction MOLREP phasing Coot model building