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Crystal Structure of a reconstructed Kaede-type Red Fluorescent Protein, LEA X(6)
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 7.7 298 0.07M tris, 0.2 M magnesium chloride, 16% PEG 4000, pH 7.7, VAPOR DIFFUSION, HANGING DROP, temperature 298K
Crystal Properties Matthews coefficient Solvent content 2.11 41.73
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 47.65 α = 90 b = 78.34 β = 90 c = 119.43 γ = 90
Symmetry Space Group I 2 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 IMAGE PLATE RIGAKU RAXIS IV++ 2009-06-04 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 ROTATING ANODE RIGAKU RU300 1.5418
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 2.5 39.16 98.8 0.058 16.2 4.8 8009 7913 3 2
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R Merge I (Observed) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 2.5 2.64 98.4 0.363 4.1 4.9
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 2.5 30.55 7527 382 98.02 0.19021 0.18706 0.1887 0.25257 0.2082 RANDOM 31.523
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] 0.13 -0.06 -0.07
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 36.708 r_dihedral_angle_3_deg 19.737 r_sphericity_free 11.076 r_dihedral_angle_4_deg 10.244 r_dihedral_angle_1_deg 7.861 r_scangle_it 5.356 r_scbond_it 3.508 r_sphericity_bonded 2.598 r_mcangle_it 2.553 r_angle_refined_deg 2.07
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 36.708 r_dihedral_angle_3_deg 19.737 r_sphericity_free 11.076 r_dihedral_angle_4_deg 10.244 r_dihedral_angle_1_deg 7.861 r_scangle_it 5.356 r_scbond_it 3.508 r_sphericity_bonded 2.598 r_mcangle_it 2.553 r_angle_refined_deg 2.07 r_rigid_bond_restr 2.01 r_mcbond_it 1.501 r_angle_other_deg 1.065 r_mcbond_other 0.437 r_chiral_restr 0.123 r_bond_refined_d 0.025 r_gen_planes_refined 0.01 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
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 1726 Nucleic Acid Atoms Solvent Atoms 60 Heterogen Atoms 1
Software Software Software Name Purpose CrystalClear data collection PHASER phasing REFMAC refinement MOSFLM data reduction SCALA data scaling