☰ Navigation Tabs
Crystal structure of the hood domain of Anabaena HetR in complex with the hexapeptide ERGSGR derived from PatS
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 4K1M
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 5.6 289 25% PEG 4000, 0.1 M sodium citrate, 0.2 M ammonium acetate
Crystal Properties Matthews coefficient Solvent content 2.8 56.11
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 218.215 α = 90 b = 43.463 β = 97.54 c = 55.113 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 ADSC QUANTUM 315r 2014-07-10 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON SSRF BEAMLINE BL17U 0.97915 SSRF BL17U
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 2.1 50 97.5 0.138 7.81 2.9 29699
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 2.1 2.15 95.1 0.517 2.413 2.4
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 4K1M 2.1 42.65 28079 1506 96.35 0.21425 0.21197 0.2134 0.2557 0.2513 RANDOM 72.776
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] 3.5 -0.07 -1.57 -1.85
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 30.252 r_dihedral_angle_4_deg 16.475 r_dihedral_angle_3_deg 14.727 r_long_range_B_refined 9.132 r_long_range_B_other 8.907 r_dihedral_angle_1_deg 5.615 r_scangle_other 5.344 r_mcangle_it 5.28 r_mcangle_other 5.279 r_mcbond_it 3.238
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 30.252 r_dihedral_angle_4_deg 16.475 r_dihedral_angle_3_deg 14.727 r_long_range_B_refined 9.132 r_long_range_B_other 8.907 r_dihedral_angle_1_deg 5.615 r_scangle_other 5.344 r_mcangle_it 5.28 r_mcangle_other 5.279 r_mcbond_it 3.238 r_mcbond_other 3.237 r_scbond_it 3.172 r_scbond_other 3.171 r_angle_refined_deg 1.378 r_angle_other_deg 0.781 r_chiral_restr 0.08 r_bond_refined_d 0.012 r_gen_planes_refined 0.008 r_bond_other_d 0.001 r_gen_planes_other 0.001 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_rigid_bond_restr r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 2778 Nucleic Acid Atoms Solvent Atoms 172 Heterogen Atoms
Software Software Software Name Purpose REFMAC refinement HKL-2000 data reduction HKL-2000 data scaling MOLREP phasing