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Structure of 2A protein from encephalomyocarditis virus (EMCV)
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 5.7 294 Purified EMCV 2A was concentrated to 5.9 mg/ml in 10 mM HEPES pH 7.9, 1.0 M NaCl, 2.0 mM DTT
Drops were prepared by mixing 200 nL protein and 200 nL crystallization buffer: 0.625 M ammonium sulfate, 0.15 M tri-sodium citrate pH 5.7
Crystal Properties Matthews coefficient Solvent content 3.07 59.97
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 91.56 α = 90 b = 91.56 β = 90 c = 316.39 γ = 120
Symmetry Space Group P 62 2 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 PIXEL DECTRIS PILATUS 6M 2018-06-24 M SINGLE WAVELENGTH 2 1 x-ray 100 PIXEL DECTRIS PILATUS 6M-F 2018-09-21 M MAD
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON DIAMOND BEAMLINE I03 0.97958 Diamond I03 2 SYNCHROTRON DIAMOND BEAMLINE I04 0.97635, 0.97965, 0.97974 Diamond I04
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge I (Observed) Rpim I (All) CC (Half) 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 2.62 43.91 100 0.227 0.053 0.998 11.5 18.9 24668 54.9
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R Merge I (Observed) Rpim I (All) CC (Half) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 2.62 2.67 99.8 2.766 0.64 0.728 1 19.4
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Resolution (High) Resolution (Low) Cut-off Sigma (F) 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) Mean Isotropic B X-RAY DIFFRACTION MAD FREE R-VALUE 2.62 43.91 1.34 24568 1207 99.66 0.2267 0.2254 0.2253 0.2511 0.2499 75.03
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]
RMS Deviations Key Refinement Restraint Deviation f_dihedral_angle_d 25.6104 f_angle_d 0.7407 f_chiral_restr 0.0465 f_plane_restr 0.0068 f_bond_d 0.0033
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 4384 Nucleic Acid Atoms Solvent Atoms 147 Heterogen Atoms 45
Software Software Software Name Purpose GDA data collection xia2 data reduction XDS data reduction Aimless data scaling SHARP phasing SHELXD phasing PHENIX refinement ARP/wARP model building Coot model building