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Crystal structure of TT0143 from Thermus thermophilus HB8
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1ULU
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 5.5 293 PEG4000, LiCl, Sodium Citerate, NaCl, NADP(+), pH 5.5, VAPOR DIFFUSION, HANGING DROP, temperature 293K
Crystal Properties Matthews coefficient Solvent content 2.11 41.72
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 96.087 α = 90 b = 107.131 β = 90 c = 184.704 γ = 90
Symmetry Space Group P 21 21 21
Diffraction Diffraction Experiment ID # Crystal ID Scattering Type Data Collection Temperature Detector Detector Type Details Collection Date Monochromator Protocol 1 1 x-ray 90 CCD RIGAKU JUPITER 210 2001-11-29 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON SPRING-8 BEAMLINE BL45XU 1.02 SPring-8 BL45XU
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 2.5 38.876 99.9 0.131 4.5 7 66626 39.37
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 2.5 2.64 99.9 0.485 1.4 6.9 9522
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 1ULU 2.5 20 66487 6738 100 0.22644 0.22228 0.2238 0.26273 0.2651 RANDOM 29.44
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] -2.21 -2.73 4.95
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 29.922 r_dihedral_angle_4_deg 16.709 r_dihedral_angle_3_deg 14.325 r_dihedral_angle_1_deg 4.526 r_scangle_it 2.963 r_scbond_it 1.949 r_mcangle_it 1.188 r_angle_refined_deg 0.96 r_mcbond_it 0.705 r_nbtor_refined 0.316
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 29.922 r_dihedral_angle_4_deg 16.709 r_dihedral_angle_3_deg 14.325 r_dihedral_angle_1_deg 4.526 r_scangle_it 2.963 r_scbond_it 1.949 r_mcangle_it 1.188 r_angle_refined_deg 0.96 r_mcbond_it 0.705 r_nbtor_refined 0.316 r_symmetry_vdw_refined 0.241 r_symmetry_hbond_refined 0.237 r_nbd_refined 0.192 r_xyhbond_nbd_refined 0.154 r_chiral_restr 0.063 r_bond_refined_d 0.006 r_gen_planes_refined 0.003 r_bond_other_d r_angle_other_deg r_gen_planes_other r_nbd_other r_nbtor_other r_xyhbond_nbd_other r_metal_ion_refined r_metal_ion_other r_symmetry_vdw_other r_symmetry_hbond_other r_symmetry_metal_ion_refined r_symmetry_metal_ion_other r_mcbond_other r_rigid_bond_restr r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 14247 Nucleic Acid Atoms Solvent Atoms 386 Heterogen Atoms 96
Software Software Software Name Purpose REFMAC refinement MOSFLM data reduction CCP4 data scaling AMoRE phasing