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Crystal structure of putative nitroalkan dioxygenase (TM0800) from Thermotoga maritima at 2.71 A resolution
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 8.67 293 NANODROP, 44.0% PEG 400, 0.2M Lithium sulfate, 0.1M Tris-HCl pH 8.67, VAPOR DIFFUSION, SITTING DROP, temperature 293K
Crystal Properties Matthews coefficient Solvent content 4.63 73.44
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 128.058 α = 90 b = 128.058 β = 90 c = 161.678 γ = 90
Symmetry Space Group P 43 21 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 MARMOSAIC 300 mm CCD Adjustable focusing mirrors in K-B geometry 2007-10-27 M MAD
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON APS BEAMLINE 23-ID-D 0.91840, 0.97939, 0.97953 APS 23-ID-D
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge I (Observed) R Sym 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 2.71 29.761 99.9 0.171 0.171 3.7 7.3 37210 67.24
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R Merge I (Observed) R-Sym I (Observed) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 2.71 2.78 100 1.555 1.555 0.4 7.4 2725
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method 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 MAD THROUGHOUT 2.71 29.761 37145 1854 99.88 0.19 0.189 0.1921 0.211 0.215 RANDOM 39.802
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] -0.36 -0.36 0.72
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 33.217 r_dihedral_angle_4_deg 14.746 r_dihedral_angle_3_deg 13.241 r_scangle_it 6.594 r_scbond_it 4.57 r_dihedral_angle_1_deg 3.663 r_mcangle_it 2.192 r_mcbond_it 1.572 r_angle_refined_deg 1.312 r_angle_other_deg 0.894
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 33.217 r_dihedral_angle_4_deg 14.746 r_dihedral_angle_3_deg 13.241 r_scangle_it 6.594 r_scbond_it 4.57 r_dihedral_angle_1_deg 3.663 r_mcangle_it 2.192 r_mcbond_it 1.572 r_angle_refined_deg 1.312 r_angle_other_deg 0.894 r_mcbond_other 0.282 r_symmetry_vdw_other 0.223 r_nbd_refined 0.216 r_xyhbond_nbd_refined 0.189 r_nbd_other 0.188 r_nbtor_refined 0.177 r_symmetry_vdw_refined 0.142 r_symmetry_hbond_refined 0.096 r_nbtor_other 0.086 r_chiral_restr 0.073 r_bond_refined_d 0.012 r_gen_planes_refined 0.004 r_bond_other_d 0.002 r_gen_planes_other 0.001
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 4663 Nucleic Acid Atoms Solvent Atoms 25 Heterogen Atoms 152
Software Software Software Name Purpose REFMAC refinement PHENIX refinement SOLVE phasing MolProbity model building SCALA data scaling PDB_EXTRACT data extraction MAR345 data collection MOSFLM data reduction