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Crystal structure of Lithium bound rotor ring of the V-ATPase from Enterococcus hirae
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 7.5 296 PEG 400, Lithium chroride, Potassium citrate, Tris-HCl, Glycerol, Undecyl-maltoside, Dodecyl-maltoside, pH 7.5, VAPOR DIFFUSION, SITTING DROP, temperature 296K
Crystal Properties Matthews coefficient Solvent content 4.9 74.9
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 119.648 α = 90 b = 125.779 β = 90 c = 210.196 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 IMAGE PLATE RIGAKU 2005-05-18 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON SPRING-8 BEAMLINE BL26B1 1.0000 SPring-8 BL26B1
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge I (Observed) R Sym 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 2.8 107.83 0.094 0.094 11.2 4.1 78734 77244 56
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R Merge I (Observed) R-Sym I (Observed) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 2.8 2.95 0.706 0.706 1.9 3.6 10723
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method 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 2.8 107.8 1.9 77318 73353 3890 98.11 0.20861 0.20811 0.21813 0.2321 RANDOM 55.981
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] -4 2.38 1.62
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 43.354 r_dihedral_angle_3_deg 14.449 r_dihedral_angle_1_deg 4.201 r_scangle_it 2.295 r_scbond_it 1.243 r_angle_refined_deg 1.134 r_mcangle_it 0.947 r_mcbond_it 0.539 r_nbtor_refined 0.301 r_symmetry_vdw_refined 0.213
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 43.354 r_dihedral_angle_3_deg 14.449 r_dihedral_angle_1_deg 4.201 r_scangle_it 2.295 r_scbond_it 1.243 r_angle_refined_deg 1.134 r_mcangle_it 0.947 r_mcbond_it 0.539 r_nbtor_refined 0.301 r_symmetry_vdw_refined 0.213 r_nbd_refined 0.202 r_xyhbond_nbd_refined 0.126 r_symmetry_hbond_refined 0.101 r_chiral_restr 0.081 r_metal_ion_refined 0.021 r_bond_refined_d 0.009 r_gen_planes_refined 0.004
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 11280 Nucleic Acid Atoms Solvent Atoms 322 Heterogen Atoms 968
Software Software Software Name Purpose REFMAC refinement MOSFLM data reduction CCP4 data scaling AMoRE phasing