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Complex of the Caf1AN usher domain, Caf1M chaperone and Caf1 subunit from Yersinia pestis
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1P5V PDB ENTRY 1P5V
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 6.4 279 HANGING DROPS OF 1.5 UL CAF1AN:CAF1M:CAF1 COMPLEX (35 MG/ML) PLUS 1.5 UL OF 15% PEG 3350, 0.1 M NA-CACODYLATE, PH 6.4, 1-2 WEEKS AT 6 DEG C.
Crystal Properties Matthews coefficient Solvent content 2.5 51
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 35.281 α = 90 b = 77.436 β = 98.48 c = 95.858 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 CCD 2006-11-26 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON ESRF BEAMLINE ID29 ESRF ID29
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 1.8 30 96.9 0.06 17.5 3.4 47312 2 25
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 1.8 1.9 81.5 0.32 2.5 2.6
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 PDB ENTRY 1P5V 1.8 30 45816 2310 96.867 0.186 0.1833 0.1791 0.2371 0.1871 RANDOM 33.777
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] 1.296 -1.956 -1.401 -0.471
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 35.753 r_dihedral_angle_3_deg 15.833 r_dihedral_angle_4_deg 14.275 r_dihedral_angle_1_deg 6.849 r_scangle_it 4.001 r_scbond_it 2.686 r_mcangle_it 1.964 r_angle_refined_deg 1.758 r_mcbond_it 1.233 r_nbtor_refined 0.309
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 35.753 r_dihedral_angle_3_deg 15.833 r_dihedral_angle_4_deg 14.275 r_dihedral_angle_1_deg 6.849 r_scangle_it 4.001 r_scbond_it 2.686 r_mcangle_it 1.964 r_angle_refined_deg 1.758 r_mcbond_it 1.233 r_nbtor_refined 0.309 r_nbd_refined 0.213 r_symmetry_vdw_refined 0.211 r_symmetry_hbond_refined 0.175 r_xyhbond_nbd_refined 0.148 r_chiral_restr 0.142 r_bond_refined_d 0.022 r_gen_planes_refined 0.009 r_bond_other_d r_angle_other_deg r_gen_planes_other r_nbd_other r_nbtor_other r_xyhbond_nbd_other r_metal_ion_refined r_metal_ion_other r_symmetry_vdw_other r_symmetry_hbond_other r_symmetry_metal_ion_refined r_symmetry_metal_ion_other r_mcbond_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 3666 Nucleic Acid Atoms Solvent Atoms 429 Heterogen Atoms
Software Software Software Name Purpose REFMAC refinement MOSFLM data reduction SCALA data scaling PHASER phasing