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Light driven bicarbonate reduction by fluorescent protein mRuby-Carb2M2
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 9V56
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 293 0.2M NH4HCO3, 0.1M Bistris pH6.5, 25%PEG3350
Crystal Properties Matthews coefficient Solvent content 2.05 39.93
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 31.621 α = 90 b = 67.126 β = 90 c = 95.001 γ = 90
Symmetry Space Group P 21 21 21
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 EIGER2 S 9M 2024-10-02 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON SSRF BEAMLINE BL02U1 0.97918 SSRF BL02U1
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) 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 1.67 33.56 100 0.997 9 12.3 24280
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) CC (Half) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 1.67 1.71 0.604
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 1.67 33.56 22974 1201 99.66 0.21785 0.217 0.2319 0.23369 0.247 RANDOM 19.476
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] 1.04 -1.4 0.36
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_3_deg 13.375 r_dihedral_angle_1_deg 7.096 r_dihedral_angle_2_deg 5.849 r_long_range_B_refined 3.501 r_long_range_B_other 3.458 r_scangle_other 1.861 r_mcangle_it 1.301 r_mcangle_other 1.3 r_angle_refined_deg 1.146 r_scbond_it 1.086
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_3_deg 13.375 r_dihedral_angle_1_deg 7.096 r_dihedral_angle_2_deg 5.849 r_long_range_B_refined 3.501 r_long_range_B_other 3.458 r_scangle_other 1.861 r_mcangle_it 1.301 r_mcangle_other 1.3 r_angle_refined_deg 1.146 r_scbond_it 1.086 r_scbond_other 1.083 r_mcbond_it 0.767 r_mcbond_other 0.767 r_angle_other_deg 0.401 r_chiral_restr 0.056 r_gen_planes_refined 0.004 r_bond_refined_d 0.002 r_bond_other_d 0.001 r_gen_planes_other 0.001 r_dihedral_angle_4_deg 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 1724 Nucleic Acid Atoms Solvent Atoms 83 Heterogen Atoms 4
Software Software Software Name Purpose REFMAC refinement Aimless data scaling xia2 data reduction MOLREP phasing PDB_EXTRACT data extraction