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LSSmOrange - Directionality of Optical Properties of Fluorescent Proteins
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 4Q7R
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 5.2 291 100 mM Sodium acetate
50 % v/v Polyethylene glycol 400
200 mM Lithium sulfate
Crystal Properties Matthews coefficient Solvent content 2.11 41.75
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 68.09 α = 90 b = 68.09 β = 90 c = 41.02 γ = 120
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 RIGAKU HyPix-6000HE 2022-03-24 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 ROTATING ANODE RIGAKU MICROMAX-007 HF 1.541870
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge I (Observed) Rrim 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 1.4 50 99.6 0.079 0.084 0.9990000000000001 14.55 9.9 41808
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R Merge I (Observed) Rrim I (All) CC (Half) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 1.4 1.48 1.295 1.391 0.608
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 1.43 34.04 37349 1966 99.92 0.13587 0.13355 0.1388 0.18076 0.1918 RANDOM 21.93
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] -0.95 -0.48 -0.95 3.09
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 28.93 r_dihedral_angle_4_deg 23.936 r_dihedral_angle_3_deg 12.647 r_dihedral_angle_1_deg 7.41 r_long_range_B_refined 5.167 r_long_range_B_other 5.122 r_scangle_other 4.875 r_scbond_it 4.701 r_scbond_other 4.68 r_rigid_bond_restr 4.524
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 28.93 r_dihedral_angle_4_deg 23.936 r_dihedral_angle_3_deg 12.647 r_dihedral_angle_1_deg 7.41 r_long_range_B_refined 5.167 r_long_range_B_other 5.122 r_scangle_other 4.875 r_scbond_it 4.701 r_scbond_other 4.68 r_rigid_bond_restr 4.524 r_mcangle_it 3.81 r_mcangle_other 3.809 r_mcbond_it 2.995 r_mcbond_other 2.99 r_angle_refined_deg 1.852 r_angle_other_deg 1.497 r_chiral_restr 0.094 r_bond_refined_d 0.013 r_gen_planes_refined 0.011 r_bond_other_d 0.009 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_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 1744 Nucleic Acid Atoms Solvent Atoms 148 Heterogen Atoms 62
Software Software Software Name Purpose REFMAC refinement Aimless data scaling CrysalisPro data reduction MOLREP phasing