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CRYSTAL STRUCTURE OF A PUTATIVE THIAMIN PHOSPHATE SYNTHASE (TM0723) FROM THERMOTOGA MARITIMA MSB8 AT 1.52 A RESOLUTION
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1VMF
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION,SITTING DROP,NANODROP 6 293 3.2M (NH4)2SO4, 0.1M MES pH 6.0, VAPOR DIFFUSION,SITTING DROP,NANODROP, temperature 293K
Crystal Properties Matthews coefficient Solvent content 2.85 56.48
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 110.194 α = 90 b = 110.194 β = 90 c = 110.194 γ = 90
Symmetry Space Group P 43 3 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 ADSC QUANTUM 315 flat mirror 2001-12-09 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON SSRL BEAMLINE BL11-1 SSRL BL11-1
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (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 1.52 27.55 100 0.115 19.2 20.5 35764 24.03
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R-Sym I (Observed) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 1.52 1.6 100 0.01166 2 8.8 5117
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 1VMF 1.52 27.55 33973 1790 99.94 0.14495 0.144 0.1563 0.16302 0.1768 RANDOM 15.684
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]
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 38.858 r_dihedral_angle_4_deg 13.907 r_dihedral_angle_3_deg 11.836 r_dihedral_angle_1_deg 6.717 r_scangle_it 5.35 r_scbond_it 3.674 r_mcangle_it 2.277 r_mcbond_it 1.402 r_angle_refined_deg 1.358 r_angle_other_deg 0.795
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 38.858 r_dihedral_angle_4_deg 13.907 r_dihedral_angle_3_deg 11.836 r_dihedral_angle_1_deg 6.717 r_scangle_it 5.35 r_scbond_it 3.674 r_mcangle_it 2.277 r_mcbond_it 1.402 r_angle_refined_deg 1.358 r_angle_other_deg 0.795 r_mcbond_other 0.411 r_symmetry_vdw_other 0.284 r_metal_ion_refined 0.266 r_nbd_refined 0.24 r_nbd_other 0.196 r_nbtor_refined 0.179 r_xyhbond_nbd_refined 0.166 r_symmetry_hbond_refined 0.144 r_symmetry_vdw_refined 0.128 r_chiral_restr 0.084 r_nbtor_other 0.084 r_bond_refined_d 0.011 r_gen_planes_refined 0.006 r_bond_other_d 0.002 r_gen_planes_other 0.001
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 1138 Nucleic Acid Atoms Solvent Atoms 213 Heterogen Atoms 16
Software Software Software Name Purpose XDS data scaling SCALA data scaling MOLREP phasing REFMAC refinement XDS data reduction CCP4 data scaling