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Crystal structure of the flagellar cap protein flid D2-D3 domains from serratia marcescens in Space group P432
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 5H5W
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 291 6% PEG 6000, 2.0M sodium chloride
Crystal Properties Matthews coefficient Solvent content 3.33 63.05
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 120.386 α = 90 b = 120.386 β = 90 c = 120.386 γ = 90
Symmetry Space Group P 4 3 2
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 2016-12-18 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON PAL/PLS BEAMLINE 7A (6B, 6C1) 1.00004 PAL/PLS 7A (6B, 6C1)
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 1.9 30 99.9 0.113 33 7.9 24119
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 1.9 1.93 0.517
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 5H5W 1.9 30 22784 1225 99.43 0.19034 0.18936 0.1919 0.20841 0.2073 RANDOM 22.631
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]
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 37.84 r_dihedral_angle_4_deg 11.863 r_dihedral_angle_3_deg 11.379 r_dihedral_angle_1_deg 6.132 r_scangle_it 4.312 r_scbond_it 2.528 r_angle_refined_deg 1.463 r_mcangle_it 1.406 r_angle_other_deg 0.927 r_mcbond_it 0.729
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 37.84 r_dihedral_angle_4_deg 11.863 r_dihedral_angle_3_deg 11.379 r_dihedral_angle_1_deg 6.132 r_scangle_it 4.312 r_scbond_it 2.528 r_angle_refined_deg 1.463 r_mcangle_it 1.406 r_angle_other_deg 0.927 r_mcbond_it 0.729 r_mcbond_other 0.196 r_chiral_restr 0.091 r_bond_refined_d 0.014 r_gen_planes_refined 0.005 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_mcangle_other r_scbond_other r_scangle_other r_long_range_B_refined r_long_range_B_other r_rigid_bond_restr r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 1381 Nucleic Acid Atoms Solvent Atoms 150 Heterogen Atoms 6
Software Software Software Name Purpose REFMAC refinement HKL-2000 data reduction HKL-2000 data scaling PHASER phasing