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mNeonGreen - Directionality of Optical Properties of Fluorescent Proteins
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 5LTP
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 7.5 291 100 mM sodium HEPES
20% PEG 8000
Crystal Properties Matthews coefficient Solvent content 2.14 42.41
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 59.501 α = 90 b = 59.501 β = 90 c = 132.679 γ = 90
Symmetry Space Group P 41 21 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 PILATUS3 R 300K VariMax Cu-VHF 2021-12-10 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 2.3 50 98.4 0.083 0.08900000000000001 0.998 15.37 7.1 11039
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 2.3 2.44 0.48700000000000004 0.546 0.9159999999999999
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 2.32 30.48 10286 542 98.85 0.23325 0.23001 0.2325 0.29365 0.2991 RANDOM 50.495
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] 0.06 0.06 -0.12
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 33.772 r_dihedral_angle_3_deg 17.881 r_dihedral_angle_4_deg 16.403 r_long_range_B_other 10.436 r_long_range_B_refined 10.419 r_dihedral_angle_1_deg 9.606 r_scangle_other 8.457 r_mcangle_other 6.988 r_mcangle_it 6.987 r_scbond_it 6.368
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 33.772 r_dihedral_angle_3_deg 17.881 r_dihedral_angle_4_deg 16.403 r_long_range_B_other 10.436 r_long_range_B_refined 10.419 r_dihedral_angle_1_deg 9.606 r_scangle_other 8.457 r_mcangle_other 6.988 r_mcangle_it 6.987 r_scbond_it 6.368 r_scbond_other 6.305 r_mcbond_it 5.64 r_mcbond_other 5.616 r_angle_refined_deg 2.367 r_angle_other_deg 1.378 r_chiral_restr 0.082 r_bond_refined_d 0.014 r_gen_planes_refined 0.011 r_bond_other_d 0.002 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 1718 Nucleic Acid Atoms Solvent Atoms 21 Heterogen Atoms 5
Software Software Software Name Purpose REFMAC refinement XDS data scaling XDS data reduction MOLREP phasing