☰ Navigation Tabs
Crystal structure of Enterococcus hirae V1-ATPase [eV1]
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 3VR2 3VR2, 3AON, 3A5C experimental model PDB 3AON 3VR2, 3AON, 3A5C experimental model PDB 3A5C 3VR2, 3AON, 3A5C
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 6.5 296 29.2% PEG3350, 0.1M NaF, 0.1M Bis-Tris propane, pH 6.5, VAPOR DIFFUSION, SITTING DROP, temperature 296K
Crystal Properties Matthews coefficient Solvent content 2.33 47.28
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 127.98 α = 90 b = 128.48 β = 90 c = 225.93 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 210r 2009-12-16 M SINGLE WAVELENGTH 2 1 x-ray 100 CCD ADSC QUANTUM 210r 2009-12-16 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON PHOTON FACTORY BEAMLINE AR-NW12A 0.97919 Photon Factory AR-NW12A 2 SYNCHROTRON PHOTON FACTORY BEAMLINE AR-NW12A 1.0000 Photon Factory AR-NW12A
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 2.17 37.12 99.7 0.09 16.8 7.4 195452 195452 -3 -3 29.349
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 2.17 2.23 97.1 0.535 3.7 7.2 13905
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Starting model Resolution (High) Resolution (Low) Cut-off Sigma (F) Number Reflections (Observed) Number Reflections (R-Free) Percent Reflections (Observed) R-Factor (All) 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 MOLECULAR REPLACEMENT and SAD THROUGHOUT 3VR2, 3AON, 3A5C 2.172 34.042 1.32 194627 9799 98.96 0.1685 0.1685 0.1665 0.1647 0.2108 0.2115 RANDOM 32.7787
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] -0.5525 -0.2784 0.8309
RMS Deviations Key Refinement Restraint Deviation f_dihedral_angle_d 12.97 f_angle_d 0.738 f_chiral_restr 0.051 f_bond_d 0.003 f_plane_restr 0.003
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 26189 Nucleic Acid Atoms Solvent Atoms 1795 Heterogen Atoms 87
Software Software Software Name Purpose SERGUI data collection PHASER phasing PHENIX refinement XDS data reduction XDS data scaling