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Structure and mechanism of kainate receptor modulation by anions
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 2F34 PDB ENTRY 2F34
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 8.7 293 19% PEG 1000, 120 mM Br, 100 mM Tris-HCl, pH 8.7, VAPOR DIFFUSION, HANGING DROP, temperature 293K
Crystal Properties Matthews coefficient Solvent content 2.63 53.15
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 97.598 α = 90 b = 97.732 β = 90 c = 128.688 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 MARRESEARCH 2006-04-21 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON APS BEAMLINE 22-ID 0.92017 APS 22-ID
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 1.95 30 97.9 0.048 10.8 7.7 44649 1 1 28.62
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 1.95 2.03 99 0.38 3.8 7.6
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 2F34 1.95 27.83 41266 41266 2184 96.52 0.19223 0.19223 0.1901 0.2073 0.23291 0.2335 RANDOM 36.399
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] 0.03 0.03 -0.06
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 29.544 r_dihedral_angle_3_deg 12.75 r_dihedral_angle_4_deg 12.688 r_dihedral_angle_1_deg 3.84 r_mcangle_it 1.649 r_scangle_it 1.455 r_angle_refined_deg 1.331 r_scbond_it 1.044 r_mcbond_it 1.022 r_nbtor_refined 0.316
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 29.544 r_dihedral_angle_3_deg 12.75 r_dihedral_angle_4_deg 12.688 r_dihedral_angle_1_deg 3.84 r_mcangle_it 1.649 r_scangle_it 1.455 r_angle_refined_deg 1.331 r_scbond_it 1.044 r_mcbond_it 1.022 r_nbtor_refined 0.316 r_symmetry_vdw_refined 0.251 r_nbd_refined 0.225 r_symmetry_hbond_refined 0.202 r_xyhbond_nbd_refined 0.199 r_chiral_restr 0.097 r_bond_refined_d 0.011 r_gen_planes_refined 0.004
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 4014 Nucleic Acid Atoms Solvent Atoms 288 Heterogen Atoms 82
Software Software Software Name Purpose REFMAC refinement HKL-2000 data collection HKL-2000 data reduction HKL-2000 data scaling AMoRE phasing