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Crystal Structure of the GTP-binding protein YsxC complexed with GDP
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 7.5 290 PG 4000, isopropanol, N Hepes buffer, GDP,MgCl2, pH 7.5, VAPOR DIFFUSION, HANGING DROP, temperature 290K
Crystal Properties Matthews coefficient Solvent content 2.21 44.34
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 46.179 α = 90 b = 68.305 β = 94.05 c = 61.999 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 MARRESEARCH 2002-01-01 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 ROTATING ANODE RIGAKU RU200 1.5418
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (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 1.95 10 94.8 13194 2 2
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-Free (Depositor) R-Free Selection Details Mean Isotropic B X-RAY DIFFRACTION MIR THROUGHOUT 1.95 10 12485 641 94.13 0.17831 0.17614 0.22174 RANDOM 17.442
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] 0.34 -0.58 -0.53 0.11
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_3_deg 17.494 r_dihedral_angle_1_deg 3.397 r_scangle_it 3.031 r_scbond_it 1.791 r_angle_refined_deg 1.287 r_mcangle_it 1.061 r_symmetry_hbond_refined 0.63 r_mcbond_it 0.547 r_nbd_refined 0.235 r_symmetry_vdw_refined 0.231
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_3_deg 17.494 r_dihedral_angle_1_deg 3.397 r_scangle_it 3.031 r_scbond_it 1.791 r_angle_refined_deg 1.287 r_mcangle_it 1.061 r_symmetry_hbond_refined 0.63 r_mcbond_it 0.547 r_nbd_refined 0.235 r_symmetry_vdw_refined 0.231 r_xyhbond_nbd_refined 0.214 r_chiral_restr 0.089 r_bond_refined_d 0.008 r_gen_planes_refined 0.004
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 1457 Nucleic Acid Atoms Solvent Atoms 246 Heterogen Atoms 28
Software Software Software Name Purpose REFMAC refinement MAR345 data collection SCALEPACK data scaling MLPHARE phasing