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X-ray structure of selenomethionyl gene product from Arabidopsis thaliana at5g02240 in space group P21212
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 6.5 293 10 MG/ML PROTEIN, 24 PERCENT PEG 4K,
0.136 M SODIUM MALONATE, 0.10 M BISTRIS, pH 6.5, VAPOR DIFFUSION, HANGING DROP, temperature 293K
Crystal Properties Matthews coefficient Solvent content 2.5 49.9
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 74.634 α = 90 b = 77.286 β = 90 c = 92.864 γ = 90
Symmetry Space Group P 21 21 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 MAR CCD 165 mm bent cylindrical Si-mirror (Rh coating) 2004-08-08 M MAD
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON APS BEAMLINE 14-ID-B 0.97935, 0.97904, 0.96389 APS 14-ID-B
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 2.096 29.087 93 0.047 22.745 11.7 29937
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) 2.1 2.15 88.3 0.28 6.125 9.3
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 (All) R-Work (Depositor) R-Work (DCC) R-Free (Depositor) R-Free (DCC) R-Free Selection Details Mean Isotropic B X-RAY DIFFRACTION MAD THROUGHOUT 2.096 29.09 29855 1525 92.634 0.193 0.1888 0.1907 0.2615 0.2591 RANDOM 38.303
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] -1.539 1.589 -0.05
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 36.884 r_dihedral_angle_4_deg 15.382 r_dihedral_angle_3_deg 15.086 r_scangle_it 8.126 r_dihedral_angle_1_deg 6.592 r_scbond_it 6.383 r_mcangle_it 4.412 r_mcbond_it 3.22 r_angle_refined_deg 1.643 r_symmetry_hbond_refined 0.306
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 36.884 r_dihedral_angle_4_deg 15.382 r_dihedral_angle_3_deg 15.086 r_scangle_it 8.126 r_dihedral_angle_1_deg 6.592 r_scbond_it 6.383 r_mcangle_it 4.412 r_mcbond_it 3.22 r_angle_refined_deg 1.643 r_symmetry_hbond_refined 0.306 r_nbtor_refined 0.299 r_nbd_refined 0.204 r_xyhbond_nbd_refined 0.198 r_symmetry_vdw_refined 0.179 r_chiral_restr 0.106 r_bond_refined_d 0.016 r_gen_planes_refined 0.006
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 3672 Nucleic Acid Atoms Solvent Atoms 369 Heterogen Atoms 96
Software Software Software Name Purpose DENZO data reduction SCALEPACK data scaling SOLVE phasing RESOLVE phasing REFMAC refinement PDB_EXTRACT data extraction