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Crystal structure of the monoclinic form of Thermotoga maritima Acetyl Esterase TM0077 (apo structure) at 1.76 Angstrom resolution
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1VLQ
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 6.5 295 0.05 M Ammonium sulfate, 0.05 M BIS-TRIS pH 6.5 and 30% (V/V) Pentaerythritol ethoxylate (15/4 EO/OH)
Crystal Properties Matthews coefficient Solvent content 2.18 43.64
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 89.76 α = 90 b = 116.2 β = 109.97 c = 103.29 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 100 IMAGE PLATE MAR scanner 345 mm plate 2014-09-23 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 1.76 39.96 98.8 0.115 0.047 0.997 11.5 6.7 194397 28.4
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 1.76 1.79 96.6 0.98 0.414 0.525 1.9 6.3 9409
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-Free (Depositor) R-Free (DCC) R-Free Selection Details Mean Isotropic B X-RAY DIFFRACTION MOLECULAR REPLACEMENT THROUGHOUT 1VLQ 1.76 39.96 184681 9696 98.83 0.1615 0.1597 0.1952 0.1927 RANDOM 21.9
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] 0.27 0.04 0.28 -0.46
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 30.47 r_dihedral_angle_4_deg 16.368 r_dihedral_angle_3_deg 11.795 r_dihedral_angle_1_deg 6.461 r_mcangle_it 2.559 r_angle_refined_deg 1.855 r_mcbond_it 1.843 r_mcbond_other 1.837 r_angle_other_deg 1.058 r_chiral_restr 0.12
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 30.47 r_dihedral_angle_4_deg 16.368 r_dihedral_angle_3_deg 11.795 r_dihedral_angle_1_deg 6.461 r_mcangle_it 2.559 r_angle_refined_deg 1.855 r_mcbond_it 1.843 r_mcbond_other 1.837 r_angle_other_deg 1.058 r_chiral_restr 0.12 r_bond_refined_d 0.019 r_gen_planes_refined 0.01 r_bond_other_d 0.002 r_gen_planes_other 0.002
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 15211 Nucleic Acid Atoms Solvent Atoms 1487 Heterogen Atoms 5
Software Software Software Name Purpose Aimless data scaling REFMAC refinement PDB_EXTRACT data extraction AMoRE phasing MOSFLM data reduction