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Structure of the C-terminal Domain of Transcription Factor IIB from Trypanosoma brucei
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 5.5 298 24% PEG 3350, 0.2M sodium chloride, 0.1M Bis-tris (2-Bis(2-hydroxyethyl)amino-2-(hydroxymethyl)-1,3-propanediol), pH 5.5, VAPOR DIFFUSION, SITTING DROP, temperature 298.0K
Crystal Properties Matthews coefficient Solvent content 2.67 53.85
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 109.233 α = 90 b = 109.233 β = 90 c = 51.123 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 110 IMAGE PLATE RIGAKU RAXIS IV++ VariMax 2008-06-10 M SINGLE WAVELENGTH 2 1 x-ray 110 CCD ADSC QUANTUM 315r mirrors 2008-08-11 M MAD 1,2 1
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 ROTATING ANODE RIGAKU MICROMAX-007 HF 1.5418 2 SYNCHROTRON NSLS BEAMLINE X29A 0.9791,0.9793,0.9700 NSLS X29A
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (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 2.3 50 94.8 13573 13573
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1,2 2.3 2.38 94.3
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Resolution (High) Resolution (Low) Number Reflections (All) Number Reflections (Observed) Number Reflections (R-Free) Percent Reflections (Observed) R-Factor (All) 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 2.3 7.99 13203 11861 1342 95.2 0.20831 0.20831 0.2037 0.2116 0.24938 0.2534 RANDOM 19.7
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 30.402 r_dihedral_angle_4_deg 16.282 r_dihedral_angle_3_deg 13.031 r_dihedral_angle_1_deg 3.806 r_scangle_it 1.895 r_scbond_it 1.115 r_angle_refined_deg 1.065 r_mcangle_it 0.59 r_mcbond_it 0.299 r_chiral_restr 0.063
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 30.402 r_dihedral_angle_4_deg 16.282 r_dihedral_angle_3_deg 13.031 r_dihedral_angle_1_deg 3.806 r_scangle_it 1.895 r_scbond_it 1.115 r_angle_refined_deg 1.065 r_mcangle_it 0.59 r_mcbond_it 0.299 r_chiral_restr 0.063 r_bond_refined_d 0.008 r_gen_planes_refined 0.004
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 1609 Nucleic Acid Atoms Solvent Atoms 56 Heterogen Atoms 4
Software Software Software Name Purpose ADSC data collection SOLVE phasing REFMAC refinement HKL-2000 data reduction SCALEPACK data scaling