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Eukaryotic translation initiation factor 5A from Methanococcus jannaschii
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1EIF
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 8.5 0.1M TRIS-HCL (PH 8.5), 0.2M MGCL2, 30% PEG4000
Crystal Properties Matthews coefficient Solvent content 2.22 45
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 80.483 α = 90 b = 40.198 β = 124.29 c = 48.58 γ = 90
Symmetry Space Group C 1 2 1
Diffraction Diffraction Experiment ID # Crystal ID Scattering Type Data Collection Temperature Detector Detector Type Details Collection Date Monochromator Protocol 1 1 x-ray 100 IMAGE PLATE RIGAKU RAXIS IIC MSC FOCUSING MIRROR 1997-07-01 M SINGLE WAVELENGTH 2 1 3 1
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON NSLS BEAMLINE X4A NSLS X4A 2 SYNCHROTRON NSLS BEAMLINE X12B NSLS X12B 3 ROTATING ANODE RIGAKU 1.54
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 1.8 50 96.7 0.045 0.045 16.2 1.98 11659 -3 22.1
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 1.8 1.83 91.2 0.233 0.233 3.7 1.6
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Starting model Resolution (High) Resolution (Low) Cut-off Sigma (F) Number Reflections (Observed) Number Reflections (R-Free) Percent Reflections (Observed) R-Factor (Observed) R-Work (Depositor) R-Work (DCC) R-Free (Depositor) R-Free Selection Details Mean Isotropic B X-RAY DIFFRACTION MOLECULAR REPLACEMENT THROUGHOUT 1EIF 1.8 20 2 11482 1185 95.4 0.214 0.214 0.2196 0.249 RANDOM 25.3
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] 4.74 4.88 -4.14 -0.6
RMS Deviations Key Refinement Restraint Deviation c_dihedral_angle_d 26.3 c_scbond_it 21.03 c_scangle_it 14.8 c_mcangle_it 4.06 c_mcbond_it 3.02 c_angle_deg 1.7 c_improper_angle_d 0.89 c_bond_d 0.011 c_bond_d_na c_bond_d_prot
RMS Deviations Key Refinement Restraint Deviation c_dihedral_angle_d 26.3 c_scbond_it 21.03 c_scangle_it 14.8 c_mcangle_it 4.06 c_mcbond_it 3.02 c_angle_deg 1.7 c_improper_angle_d 0.89 c_bond_d 0.011 c_bond_d_na c_bond_d_prot c_angle_d c_angle_d_na c_angle_d_prot c_angle_deg_na c_angle_deg_prot c_dihedral_angle_d_na c_dihedral_angle_d_prot c_improper_angle_d_na c_improper_angle_d_prot
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 992 Nucleic Acid Atoms Solvent Atoms 108 Heterogen Atoms
Software Software Software Name Purpose CCP4 model building CNS refinement DENZO data reduction SCALEPACK data scaling CCP4 phasing