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Crystal structure of EGFP-based Calcium Sensor CatchER complexed with Gd
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 2OKW PDB ENTRY 2OKW
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 7 298 51 mM HEPES, pH 7.0, 1 mM beta-mercaptoethanol, 50 mM sodium acetate, 17% PEG4000, 2 mM gadolinium chloride, VAPOR DIFFUSION, HANGING DROP, temperature 298K
Crystal Properties Matthews coefficient Solvent content 3.05 59.64
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 61.062 α = 90 b = 88.334 β = 90 c = 118.167 γ = 90
Symmetry Space Group C 2 2 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 CCD MARMOSAIC 225 mm CCD 2011-02-23 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) 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 1.78 50 98.3 0.085 14.2 7.2 30260 30260
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 1.78 1.84 93.8 0.185 8.7 6.3
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Starting model Resolution (High) Resolution (Low) Number Reflections (All) Number Reflections (Observed) Number Reflections (R-Free) Percent Reflections (Observed) R-Factor (All) 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 2OKW 1.78 27.13 30260 28732 1526 98.19 0.1972 0.1972 0.19604 0.1946 0.21965 0.2191 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]
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 31.643 r_dihedral_angle_3_deg 13.274 r_dihedral_angle_4_deg 8.549 r_dihedral_angle_1_deg 6.946 r_scangle_it 3.705 r_scbond_it 2.37 r_angle_refined_deg 1.594 r_mcangle_it 1.537 r_mcbond_it 0.959 r_nbtor_refined 0.304
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 31.643 r_dihedral_angle_3_deg 13.274 r_dihedral_angle_4_deg 8.549 r_dihedral_angle_1_deg 6.946 r_scangle_it 3.705 r_scbond_it 2.37 r_angle_refined_deg 1.594 r_mcangle_it 1.537 r_mcbond_it 0.959 r_nbtor_refined 0.304 r_nbd_refined 0.249 r_symmetry_vdw_refined 0.205 r_metal_ion_refined 0.172 r_symmetry_hbond_refined 0.139 r_xyhbond_nbd_refined 0.128 r_chiral_restr 0.101 r_bond_refined_d 0.014 r_gen_planes_refined 0.007
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 1842 Nucleic Acid Atoms Solvent Atoms 138 Heterogen Atoms 2
Software Software Software Name Purpose SERGUI data collection MOLREP phasing REFMAC refinement HKL-2000 data reduction HKL-2000 data scaling