☰ Navigation Tabs
YcaO with Non-hydrolyzable ATP (AMPCPP) Bound
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 6.5 277 20% PEG 8,000
0.1 M magnesium acetate
0.1 M sodium cacodylate pH 6.5
6 mg/mL protein , VAPOR DIFFUSION, HANGING DROP, temperature 277K
Crystal Properties Matthews coefficient Solvent content 2.88 57.35
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 110.282 α = 89.4 b = 112.402 β = 73.63 c = 130.683 γ = 77.62
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 MARMOSAIC 300 mm CCD 2013-11-02 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON APS BEAMLINE 21-ID-G 0.97857 APS 21-ID-G
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 3.29 125.2 99 0.176 2.5 2.5 89486 88591
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R-Sym I (Observed) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 3.29 3.3 98.2 0.593 2.1 2.5
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Resolution (High) Resolution (Low) Number Reflections (All) 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 MOLECULAR REPLACEMENT THROUGHOUT 3.29 125.2 84993 84143 4442 99.04 0.19248 0.19002 0.1919 0.23928 0.2369 RANDOM 63.451
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] 0.8 1.38 -0.03 0.4 -1.79 -0.17
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 37.294 r_dihedral_angle_4_deg 19.482 r_dihedral_angle_3_deg 17.818 r_long_range_B_refined 12.605 r_long_range_B_other 12.605 r_scangle_other 8.061 r_mcangle_other 7.824 r_mcangle_it 7.758 r_dihedral_angle_1_deg 5.915 r_scbond_other 4.994
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 37.294 r_dihedral_angle_4_deg 19.482 r_dihedral_angle_3_deg 17.818 r_long_range_B_refined 12.605 r_long_range_B_other 12.605 r_scangle_other 8.061 r_mcangle_other 7.824 r_mcangle_it 7.758 r_dihedral_angle_1_deg 5.915 r_scbond_other 4.994 r_scbond_it 4.949 r_mcbond_it 4.894 r_mcbond_other 4.893 r_angle_refined_deg 1.507 r_angle_other_deg 1.441 r_chiral_restr 0.083 r_bond_refined_d 0.011 r_bond_other_d 0.008 r_gen_planes_refined 0.008 r_gen_planes_other 0.006 r_nbd_refined r_nbd_other r_nbtor_refined r_nbtor_other r_xyhbond_nbd_refined r_xyhbond_nbd_other r_metal_ion_refined r_metal_ion_other r_symmetry_vdw_refined r_symmetry_vdw_other r_symmetry_hbond_refined r_symmetry_hbond_other r_symmetry_metal_ion_refined r_symmetry_metal_ion_other r_scangle_it r_rigid_bond_restr r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 35815 Nucleic Acid Atoms Solvent Atoms 432 Heterogen Atoms 174
Software Software Software Name Purpose HKL-2000 data collection PHASER phasing REFMAC refinement autoPROC data scaling