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Spectroscopic and Structural Study of the Heterotropic Linkage between Halide and Proton Ion Binding to Gfp Proteins: E2(GFP)-I Complex
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 2H6V pdb entry 2H6V
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 5 14% (W/V) PEG 3350, 100 MM NH4 ACETATE, 0.2 M NH4I, PH 5.0, VAPOR DIFFUSION, HANGING DROP, TEMPERATURE 100K
Crystal Properties Matthews coefficient Solvent content 2.03 39.51
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 51.066 α = 90 b = 62.854 β = 90 c = 69.11 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 IMAGE PLATE MARRESEARCH M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 ROTATING ANODE ENRAF-NONIUS FR571
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge I (Observed) R Sym 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 1.94 46.499 98.2 0.13 0.13 12.8 5.2 16918 2
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R Merge I (Observed) R-Sym I (Observed) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1.94 2.04 91.1 0.438 0.438 2.9 4.5
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 pdb entry 2H6V 1.94 18.66 15877 841 97.99 0.18416 0.1816 0.1934 0.23422 0.2419 RANDOM 19.641
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] -0.07 0.66 -0.59
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 33.53 r_dihedral_angle_3_deg 14.384 r_dihedral_angle_4_deg 8.308 r_dihedral_angle_1_deg 7.973 r_scangle_it 3.396 r_scbond_it 2.158 r_angle_refined_deg 1.636 r_mcangle_it 1.385 r_angle_other_deg 1.274 r_metal_ion_refined 1.201
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 33.53 r_dihedral_angle_3_deg 14.384 r_dihedral_angle_4_deg 8.308 r_dihedral_angle_1_deg 7.973 r_scangle_it 3.396 r_scbond_it 2.158 r_angle_refined_deg 1.636 r_mcangle_it 1.385 r_angle_other_deg 1.274 r_metal_ion_refined 1.201 r_mcbond_it 0.856 r_symmetry_vdw_other 0.269 r_nbd_refined 0.265 r_symmetry_vdw_refined 0.239 r_nbd_other 0.201 r_mcbond_other 0.197 r_nbtor_refined 0.177 r_xyhbond_nbd_refined 0.162 r_symmetry_hbond_refined 0.112 r_chiral_restr 0.088 r_nbtor_other 0.088 r_bond_refined_d 0.014 r_gen_planes_refined 0.005 r_bond_other_d 0.001 r_gen_planes_other 0.001 r_xyhbond_nbd_other r_metal_ion_other r_symmetry_hbond_other r_symmetry_metal_ion_refined r_symmetry_metal_ion_other r_rigid_bond_restr r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 1886 Nucleic Acid Atoms Solvent Atoms 148 Heterogen Atoms 9
Software Software Software Name Purpose MOLREP phasing REFMAC refinement MOSFLM data reduction CCP4 data scaling