☰ Navigation Tabs
Crystal structure of type 2 PDF from Streptococcus agalactiae in complex with inhibitor 6b (AB47)
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 2AIE
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 7 293 7% PEG-8000, 100mM imidazole pH7.0, 100mM Zn acetate
Crystal Properties Matthews coefficient Solvent content 2.63 53.23
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 40.92 α = 90 b = 66.28 β = 90 c = 88.29 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 ADSC QUANTUM 4r 2008-02-23 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON ESRF BEAMLINE ID14-1 0.934 ESRF ID14-1
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 1.7 50 98.5 0.056 23.48 7.2 26790 2 2
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 1.7 1.8 97.3 0.214 8.73 7.23
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 2aie 1.7 44.15 25417 1338 98.64 0.14531 0.14372 0.1554 0.17507 0.1859 RANDOM 13.713
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] 0.8 -0.12 -0.67
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 32.364 r_dihedral_angle_4_deg 20.885 r_dihedral_angle_3_deg 11.822 r_long_range_B_refined 7.213 r_dihedral_angle_1_deg 6.372 r_long_range_B_other 6.267 r_scangle_other 3.52 r_angle_refined_deg 2.613 r_scbond_other 2.444 r_scbond_it 2.443
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 32.364 r_dihedral_angle_4_deg 20.885 r_dihedral_angle_3_deg 11.822 r_long_range_B_refined 7.213 r_dihedral_angle_1_deg 6.372 r_long_range_B_other 6.267 r_scangle_other 3.52 r_angle_refined_deg 2.613 r_scbond_other 2.444 r_scbond_it 2.443 r_mcangle_other 1.62 r_mcangle_it 1.619 r_angle_other_deg 1.281 r_mcbond_it 1.129 r_mcbond_other 1.128 r_chiral_restr 0.389 r_bond_refined_d 0.034 r_gen_planes_refined 0.017 r_bond_other_d 0.003 r_gen_planes_other 0.002 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 1575 Nucleic Acid Atoms Solvent Atoms 407 Heterogen Atoms 27
Software Software Software Name Purpose REFMAC refinement XDS data reduction XDS data scaling FRODO model building PHASER phasing