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Gamma-subunit of the translation initiation factor 2 from S. solfataricus in complex with Gpp(CH2)p
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 2PMD PDB ENTRY 2PMD
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 4.5 295 15% natrium malonate dihydrate, 50mM glycine, 3mM CdCl2 at the protein/nucleotide molar ratio 1/10. For cryoprotection ethylene glycol was added to the reservoir solution at the final concentration of 15% (v/v), pH4.5, VAPOR DIFFUSION, HANGING DROP, temperature 295K
Crystal Properties Matthews coefficient Solvent content 4.77 74.2
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 95.77 α = 90 b = 95.77 β = 90 c = 165.13 γ = 120
Diffraction Diffraction Experiment ID # Crystal ID Scattering Type Data Collection Temperature Detector Detector Type Details Collection Date Monochromator Protocol 1 1 x-ray 203.3 CCD MAR CCD 165 mm mirrors 2007-06-19 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON EMBL/DESY, HAMBURG BEAMLINE X12 0.8148 EMBL/DESY, HAMBURG X12
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 19.4 98.7 0.109 7.73 2.83 58626 57747
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) 2.5 2.6 98.7 0.531 2.2 2.78 6449
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Starting model Resolution (High) Resolution (Low) Cut-off Sigma (F) Number Reflections (All) Number Reflections (Observed) Number Reflections (R-Free) Percent Reflections (Observed) R-Factor (Observed) R-Work (Depositor) R-Free (Depositor) R-Free (DCC) R-Free Selection Details Mean Isotropic B X-RAY DIFFRACTION MOLECULAR REPLACEMENT THROUGHOUT PDB ENTRY 2PMD 2.5 19.4 1.97 58619 57741 2908 98.69 0.2281 0.2261 0.2661 0.2636 RANDOM
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]
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 6426 Nucleic Acid Atoms Solvent Atoms 357 Heterogen Atoms 84
Software Software Software Name Purpose XDS data scaling PHASER phasing PHENIX refinement XDS data reduction