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Crystal structure of Gamma-glutamyl phosphate reductase (yor323c) from Saccharomyces cerevisiae at 2.40 A resolution
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION,SITTING DROP,NANODROP 277 0.175M Na Cl, 0.06M Acetic Acid, 20.00% MPD, 0.04M Acetate_Na, 0.01M Cymal , VAPOR DIFFUSION,SITTING DROP,NANODROP, temperature 277K 2 VAPOR DIFFUSION,SITTING DROP,NANODROP 277 .175M Na Cl, .06M Acetic Acid, 20% MPD, .04M Acetate_Na, 0.0008M Cymal-6, VAPOR DIFFUSION,SITTING DROP,NANODROP, temperature 277K
Crystal Properties Matthews coefficient Solvent content 3.58 65.6 4.36 71.6
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 123.041 α = 90 b = 191.081 β = 90 c = 125.57 γ = 90
Symmetry Space Group C 2 2 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 315 flat mirror 2002-07-02 M SINGLE WAVELENGTH 2 1 x-ray 100 IMAGE PLATE MARRESEARCH Flat mirror 2002-06-23 M MAD 1,2 1
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON SSRL BEAMLINE BL11-1 SSRL BL11-1 2 SYNCHROTRON SSRL BEAMLINE BL9-1 0.97916, 0.97877, 0.90496 SSRL BL9-1
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 2.29 47.83 91.7 0.1 13 4.5 60572 65.61
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) 1,2 2.29 2.36 51.7 0.513 1.2 1.9 2500
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Resolution (High) Resolution (Low) 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 MAD THROUGHOUT 2.29 47.83 57462 3075 91.23 0.2123 0.21043 0.2077 0.24782 0.2439 RANDOM 59.733
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] -2.3 1.22 1.07
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 42.013 r_dihedral_angle_4_deg 22.717 r_dihedral_angle_3_deg 16.362 r_scangle_it 7.886 r_dihedral_angle_1_deg 5.898 r_scbond_it 5.591 r_mcangle_it 3.462 r_mcbond_it 2.017 r_angle_refined_deg 1.238 r_nbtor_refined 0.294
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 42.013 r_dihedral_angle_4_deg 22.717 r_dihedral_angle_3_deg 16.362 r_scangle_it 7.886 r_dihedral_angle_1_deg 5.898 r_scbond_it 5.591 r_mcangle_it 3.462 r_mcbond_it 2.017 r_angle_refined_deg 1.238 r_nbtor_refined 0.294 r_nbd_refined 0.192 r_symmetry_vdw_refined 0.184 r_symmetry_hbond_refined 0.133 r_xyhbond_nbd_refined 0.131 r_chiral_restr 0.08 r_bond_refined_d 0.011 r_gen_planes_refined 0.004
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 5912 Nucleic Acid Atoms Solvent Atoms 124 Heterogen Atoms 3
Software Software Software Name Purpose MOSFLM data reduction SCALA data scaling SOLVE phasing RESOLVE model building REFMAC refinement CCP4 data scaling RESOLVE phasing