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Regulating the Escherichia coli ammonia channel: the crystal structure of the AmtB-GlnK complex
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1U7G PDB code 1U7G
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 8 298 65% MPD, 100mM Tris pH8.0, VAPOR DIFFUSION, SITTING DROP, temperature 298K
Crystal Properties Matthews coefficient Solvent content 2.25 45.45
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 99.691 α = 90 b = 107.865 β = 90 c = 280.162 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 CCD MARRESEARCH 2006-05-14 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON SLS BEAMLINE X06SA 0.97972 SLS X06SA
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (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 2.5 50 0.0989 13.3 4.17 105009
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R-Sym I (Observed) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 2.5 2.6 0.536 3 4.21
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 code 1U7G 2.5 40 99734 5272 99.82 0.17506 0.1712 0.2023 0.24942 0.2711 RANDOM 29.201
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 -0.04 1.08
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 34.619 r_dihedral_angle_4_deg 19.036 r_dihedral_angle_3_deg 17.324 r_scangle_it 9.754 r_scbond_it 7.69 r_mcangle_it 4.687 r_mcbond_it 3.149 r_dihedral_angle_1_deg 1.729 r_angle_refined_deg 1.425 r_nbtor_refined 0.306
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 34.619 r_dihedral_angle_4_deg 19.036 r_dihedral_angle_3_deg 17.324 r_scangle_it 9.754 r_scbond_it 7.69 r_mcangle_it 4.687 r_mcbond_it 3.149 r_dihedral_angle_1_deg 1.729 r_angle_refined_deg 1.425 r_nbtor_refined 0.306 r_symmetry_vdw_refined 0.219 r_nbd_refined 0.2 r_xyhbond_nbd_refined 0.13 r_symmetry_hbond_refined 0.124 r_chiral_restr 0.105 r_bond_refined_d 0.009 r_gen_planes_refined 0.006 r_bond_other_d r_angle_other_deg r_gen_planes_other r_nbd_other r_nbtor_other r_xyhbond_nbd_other r_metal_ion_refined r_metal_ion_other r_symmetry_vdw_other r_symmetry_hbond_other r_symmetry_metal_ion_refined r_symmetry_metal_ion_other r_mcbond_other r_rigid_bond_restr r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 23314 Nucleic Acid Atoms Solvent Atoms 550 Heterogen Atoms 162
Software Software Software Name Purpose REFMAC refinement MAR345 data collection XDS data scaling MOLREP phasing