☰ Navigation Tabs
The structure of the AglA_K196R-Arg complex
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details in silico model AlphaFold
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 289.15 0.15 M KBr, 30%PEG MME550
Crystal Properties Matthews coefficient Solvent content 2.13 42.27
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 47.91 α = 90 b = 73.123 β = 90 c = 75.086 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 PIXEL DECTRIS PILATUS 6M 2024-09-29 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON SSRF BEAMLINE BL18U1 0.97853 SSRF BL18U1
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) CC (Half) 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 1.47 52.386 99.2 0.999 15 10.2 45220
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) CC (Half) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 1.47 1.51 0.01
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method 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 1.47 52.38 43152 1998 99 0.14814 0.14653 0.1484 0.18266 0.1832 RANDOM 16.935
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] -0.05 0.1 -0.05
RMS Deviations Key Refinement Restraint Deviation r_long_range_B_refined 12.966 r_dihedral_angle_3_deg 11.818 r_long_range_B_other 11.584 r_dihedral_angle_2_deg 9.19 r_scangle_other 7.187 r_dihedral_angle_1_deg 6.042 r_mcangle_other 5.327 r_mcangle_it 5.32 r_scbond_it 5.002 r_scbond_other 5.001
RMS Deviations Key Refinement Restraint Deviation r_long_range_B_refined 12.966 r_dihedral_angle_3_deg 11.818 r_long_range_B_other 11.584 r_dihedral_angle_2_deg 9.19 r_scangle_other 7.187 r_dihedral_angle_1_deg 6.042 r_mcangle_other 5.327 r_mcangle_it 5.32 r_scbond_it 5.002 r_scbond_other 5.001 r_rigid_bond_restr 4.139 r_mcbond_it 3.565 r_mcbond_other 3.537 r_angle_refined_deg 1.938 r_angle_other_deg 0.721 r_chiral_restr 0.102 r_bond_refined_d 0.013 r_gen_planes_refined 0.011 r_bond_other_d 0.001 r_gen_planes_other 0.001 r_dihedral_angle_4_deg 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_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 1907 Nucleic Acid Atoms Solvent Atoms 302 Heterogen Atoms 55
Software Software Software Name Purpose REFMAC refinement XDS data scaling XDS data reduction PHASER phasing