☰ Navigation Tabs
mCoral: a mCherry variant with cysteine replacing methionine in the chromophore
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 2H5Q
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 8 293 0.2 M Magnesium chloride, 0.1 M Tris buffer, pH 8, Glycerol 10 % v/v, 25% PEG 6-10kD smear
Crystal Properties Matthews coefficient Solvent content 2.42 49.08
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 48.76 α = 90 b = 43.182 β = 114.91 c = 63.095 γ = 90
Symmetry Space Group P 1 21 1
Diffraction Diffraction Experiment ID # Crystal ID Scattering Type Data Collection Temperature Detector Detector Type Details Collection Date Monochromator Protocol 1 1 x-ray 293 PIXEL DECTRIS EIGER X 4M 2021-09-30 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON DIAMOND BEAMLINE VMXi 0.7749 Diamond VMXi
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge I (Observed) Rrim I (All) 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 2.04 45.46 97.3 0.091 0.128 0.091 0.98 20.5 1.8 14902
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R Merge I (Observed) Rrim I (All) Rpim I (All) CC (Half) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 2.04 2.1 98.3 0.467 0.661 0.467 0.413 1.8
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-Work (DCC) R-Free (Depositor) R-Free (DCC) R-Free Selection Details Mean Isotropic B X-RAY DIFFRACTION MOLECULAR REPLACEMENT THROUGHOUT 2.04 45.46 13309 1376 95.53 0.16979 0.16555 0.1737 0.2105 0.2119 RANDOM 23.42
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] -0.41 -0.13 0.43 0.07
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 27.275 r_dihedral_angle_4_deg 17.739 r_dihedral_angle_3_deg 15.744 r_dihedral_angle_1_deg 8.356 r_long_range_B_refined 4.801 r_long_range_B_other 4.691 r_scangle_other 2.232 r_angle_refined_deg 1.553 r_mcangle_it 1.476 r_mcangle_other 1.475
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 27.275 r_dihedral_angle_4_deg 17.739 r_dihedral_angle_3_deg 15.744 r_dihedral_angle_1_deg 8.356 r_long_range_B_refined 4.801 r_long_range_B_other 4.691 r_scangle_other 2.232 r_angle_refined_deg 1.553 r_mcangle_it 1.476 r_mcangle_other 1.475 r_scbond_it 1.401 r_scbond_other 1.385 r_angle_other_deg 1.291 r_mcbond_it 0.884 r_mcbond_other 0.884 r_chiral_restr 0.066 r_bond_refined_d 0.012 r_gen_planes_refined 0.009 r_bond_other_d 0.001 r_gen_planes_other 0.001 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 1756 Nucleic Acid Atoms Solvent Atoms 87 Heterogen Atoms 5
Software Software Software Name Purpose REFMAC refinement Aimless data scaling XDS data reduction PHASER phasing