☰ Navigation Tabs
X-ray Structure of Branchiostoma floridae fluorescent protein lanFP6G
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 4HVF
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 7 293 0.1M Na acetate pH 7.0, 12% PEG 3350
Crystal Properties Matthews coefficient Solvent content 2.5 50.81
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 81.919 α = 90 b = 131.382 β = 116.41 c = 55.076 γ = 90
Symmetry Space Group C 1 2 1
Diffraction Diffraction Experiment ID # Crystal ID Scattering Type Data Collection Temperature Detector Detector Type Details Collection Date Monochromator Protocol 1 1 x-ray 100 CCD MARMOSAIC 225 mm CCD 2018-01-01 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON APS BEAMLINE 22-BM 1.0 APS 22-BM
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge I (Observed) Rrim I (All) Rpim I (All) 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 1.2 100 95.3 0.046 0.053 0.027 12.4 3.8 153983 10.3
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 1.2 1.24 85 0.532 0.63 0.334 0.749 3.4
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Starting model 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 4HVF 1.2 28 152375 1606 95.9 0.128 0.128 0.1289 0.146 0.148 RANDOM
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] -0.12 0.25 -0.05 -0.05
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 42.016 r_sphericity_free 20.594 r_dihedral_angle_4_deg 13.063 r_dihedral_angle_3_deg 11.612 r_sphericity_bonded 9.41 r_dihedral_angle_1_deg 7.064 r_rigid_bond_restr 4.76 r_scangle_other 3.357 r_scbond_it 3.2 r_scbond_other 3.199
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 42.016 r_sphericity_free 20.594 r_dihedral_angle_4_deg 13.063 r_dihedral_angle_3_deg 11.612 r_sphericity_bonded 9.41 r_dihedral_angle_1_deg 7.064 r_rigid_bond_restr 4.76 r_scangle_other 3.357 r_scbond_it 3.2 r_scbond_other 3.199 r_mcangle_it 2.195 r_mcangle_other 2.195 r_angle_refined_deg 1.853 r_mcbond_it 1.578 r_mcbond_other 1.577 r_angle_other_deg 1.026 r_chiral_restr 0.104 r_bond_refined_d 0.012 r_gen_planes_refined 0.011 r_gen_planes_other 0.004 r_bond_other_d 0.002 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_long_range_B_refined r_long_range_B_other
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 3516 Nucleic Acid Atoms Solvent Atoms 503 Heterogen Atoms
Software Software Software Name Purpose REFMAC refinement SCALEPACK data scaling MOLREP phasing PDB_EXTRACT data extraction HKL-2000 data reduction