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Crystal Structure of Saccharomyces cerevisiae transcription elongation factors Spt4-Spt5NGN domain
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 8.8 293 30% EtOH, 50mM NaCl, 100mM Tris-HCl, pH 8.8, VAPOR DIFFUSION, HANGING DROP, temperature 293.0K
Crystal Properties Matthews coefficient Solvent content 2.83 56.55
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 53.801 α = 90 b = 53.801 β = 90 c = 177.12 γ = 90
Symmetry Space Group P 41 2 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 MARRESEARCH 2005-05-03 M SINGLE WAVELENGTH 2 1 x-ray 100 CCD MARRESEARCH 2005-04-26 M SINGLE WAVELENGTH 1,2 1
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON BSRF BEAMLINE 3W1A 1.2834 BSRF 3W1A 2 ROTATING ANODE RIGAKU 1.5418
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 2.22 53.84 99.7 0.088 0.088 5.4 7.7 13617 13576 2 2 43
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 2.23 2.33 99.7 97.6 0.262 0.262 2.8 7.6
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Resolution (High) Resolution (Low) Cut-off Sigma (I) 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 SAD THROUGHOUT 2.23 21.42 2 13617 13499 686 100 0.207 0.207 0.206 0.2078 0.221 0.2269 RANDOM 37.784
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] 0.75 0.75 -1.51
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 33.726 r_dihedral_angle_4_deg 15.066 r_dihedral_angle_3_deg 14.311 r_dihedral_angle_1_deg 4.917 r_scangle_it 1.168 r_angle_refined_deg 0.994 r_scbond_it 0.723 r_mcangle_it 0.425 r_nbtor_refined 0.297 r_mcbond_it 0.249
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 33.726 r_dihedral_angle_4_deg 15.066 r_dihedral_angle_3_deg 14.311 r_dihedral_angle_1_deg 4.917 r_scangle_it 1.168 r_angle_refined_deg 0.994 r_scbond_it 0.723 r_mcangle_it 0.425 r_nbtor_refined 0.297 r_mcbond_it 0.249 r_nbd_refined 0.181 r_symmetry_vdw_refined 0.163 r_xyhbond_nbd_refined 0.138 r_symmetry_hbond_refined 0.137 r_chiral_restr 0.064 r_bond_refined_d 0.007 r_gen_planes_refined 0.002
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 1503 Nucleic Acid Atoms Solvent Atoms 110 Heterogen Atoms 15
Software Software Software Name Purpose SCALA data scaling SOLVE phasing RESOLVE phasing REFMAC refinement PDB_EXTRACT data extraction