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FraC with GlcNAc(6S) bound
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 3VWI
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 7.1 293.15 18% PEG8000, 210mM ammonium sulfate, 100mM sodium cacodylate
Crystal Properties Matthews coefficient Solvent content 2.46 50.02
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 77.16 α = 90 b = 44.4 β = 92.76 c = 114.36 γ = 90
Symmetry Space Group P 1 21 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 270 2015-05-18 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON PHOTON FACTORY BEAMLINE AR-NE3A 1.0000 Photon Factory AR-NE3A
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge I (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 1.55 37.06 91.8 0.069 0.997 14.8 5.3 103405
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R Merge I (Observed) CC (Half) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 1.55 1.63 76.8 0.29 0.937 4.5 4.8
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-Free (Depositor) R-Free (DCC) R-Free Selection Details Mean Isotropic B X-RAY DIFFRACTION MOLECULAR REPLACEMENT THROUGHOUT 3VWI 1.55 37.06 100243 3161 91.55 0.11895 0.11761 0.16307 0.178 RANDOM 16.022
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] -0.22 0.53 -0.31
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 28.498 r_sphericity_free 18.227 r_dihedral_angle_3_deg 11.087 r_dihedral_angle_4_deg 10.417 r_dihedral_angle_1_deg 6.932 r_sphericity_bonded 5.979 r_rigid_bond_restr 3.953 r_long_range_B_refined 3.052 r_long_range_B_other 2.64 r_scangle_other 2.627
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 28.498 r_sphericity_free 18.227 r_dihedral_angle_3_deg 11.087 r_dihedral_angle_4_deg 10.417 r_dihedral_angle_1_deg 6.932 r_sphericity_bonded 5.979 r_rigid_bond_restr 3.953 r_long_range_B_refined 3.052 r_long_range_B_other 2.64 r_scangle_other 2.627 r_scbond_it 2.34 r_scbond_other 2.339 r_mcangle_other 1.657 r_mcangle_it 1.656 r_angle_refined_deg 1.529 r_mcbond_it 1.462 r_mcbond_other 1.46 r_angle_other_deg 0.995 r_chiral_restr 0.101 r_bond_refined_d 0.012 r_gen_planes_refined 0.009 r_gen_planes_other 0.003 r_bond_other_d 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
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 5536 Nucleic Acid Atoms Solvent Atoms 762 Heterogen Atoms 63
Software Software Software Name Purpose REFMAC refinement MOSFLM data reduction SCALA data scaling PHASER phasing