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Minor pilin FctB from S. pyogenes with engineered intramolecular isopeptide bond
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 3KLQ 3KLQ and 1ANF experimental model PDB 1ANF 3KLQ and 1ANF
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 6.5 291 12.5% PEG 1000, 10% PEG 3350, 12.5% MPD, 0.1M MES/imidazole pH 6.5, 0.02 M sodium formate, 0.02 M ammonium acetate, 0.02 M trisodium citrate, 0.02 M sodium potassium L-tartrate, 0.02 M sodium oxamate
Crystal Properties Matthews coefficient Solvent content 2.68 54.1
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 180.359 α = 90 b = 192.093 β = 90 c = 68.204 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 ADSC QUANTUM 315r 2013-08-31 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON AUSTRALIAN SYNCHROTRON BEAMLINE MX2 0.9537 Australian Synchrotron MX2
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 2 19.57 98.5 0.997 10.3 7.4 78932
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 2 2.11 97.8 0.525 1.6 7.4
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 3KLQ and 1ANF 2 19.57 74971 3960 98.32 0.19602 0.19418 0.201 0.22991 0.2348 RANDOM 39.681
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] -0.11 0.28 -0.17
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 33.319 r_dihedral_angle_4_deg 13.621 r_dihedral_angle_3_deg 13.165 r_long_range_B_refined 6.479 r_long_range_B_other 6.449 r_dihedral_angle_1_deg 5.818 r_scangle_other 4.903 r_mcangle_it 3.545 r_mcangle_other 3.544 r_scbond_it 3.064
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 33.319 r_dihedral_angle_4_deg 13.621 r_dihedral_angle_3_deg 13.165 r_long_range_B_refined 6.479 r_long_range_B_other 6.449 r_dihedral_angle_1_deg 5.818 r_scangle_other 4.903 r_mcangle_it 3.545 r_mcangle_other 3.544 r_scbond_it 3.064 r_scbond_other 3.06 r_mcbond_it 2.332 r_mcbond_other 2.332 r_angle_refined_deg 1.393 r_angle_other_deg 0.769 r_chiral_restr 0.078 r_bond_refined_d 0.011 r_gen_planes_refined 0.006 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 6502 Nucleic Acid Atoms Solvent Atoms 277 Heterogen Atoms 80
Software Software Software Name Purpose REFMAC refinement XDS data reduction Aimless data scaling PHASER phasing