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Crystal structure of Glycerate dehydrogenase related protein from Thermoplasma acidophilum
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 298 0.2M Pottasium phosphate dibasic,
25% peg 3350, 20% glycerol, VAPOR DIFFUSION, HANGING DROP, temperature 298K
Crystal Properties Matthews coefficient Solvent content 3.03 59.41
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 66.512 α = 90 b = 77.842 β = 90 c = 152.654 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 100 CCD ADSC QUANTUM 315r MIRRORS 2009-03-23 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON NSLS BEAMLINE X29A NSLS X29A
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 2.2 50 94.4 0.094 14.8 8.2 38525 21.3
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) 2.21 2.29 71.8 0.49 11 3.6
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 (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 2.2 40.42 34341 34341 1719 84.2 0.24 0.24 0.2477 0.261 0.2711 RANDOM 37.6
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] -0.42 -0.22 0.64
RMS Deviations Key Refinement Restraint Deviation c_dihedral_angle_d 25 c_scangle_it 3.02 c_mcangle_it 2.21 c_scbond_it 2.04 c_angle_deg 1.9 c_mcbond_it 1.36 c_improper_angle_d 1.11 c_bond_d 0.018 c_bond_d_na c_bond_d_prot
RMS Deviations Key Refinement Restraint Deviation c_dihedral_angle_d 25 c_scangle_it 3.02 c_mcangle_it 2.21 c_scbond_it 2.04 c_angle_deg 1.9 c_mcbond_it 1.36 c_improper_angle_d 1.11 c_bond_d 0.018 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 4471 Nucleic Acid Atoms Solvent Atoms 203 Heterogen Atoms 2
Software Software Software Name Purpose CBASS data collection SHELX model building SHARP phasing ARP/wARP model building CNS refinement HKL-2000 data reduction SCALEPACK data scaling SHELX phasing