☰ Navigation Tabs
Crystal structure of the protein secretion chaperone CsaA from Agrobacterium tumefaciens.
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1GD7 pdb entry 1GD7
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 7.5 294 1.8M ammonium sulfate, 0.1M HEPES pH 7.5, 2% PEG400, 5% ethylene glycol, VAPOR DIFFUSION, SITTING DROP, temperature 294K
Crystal Properties Matthews coefficient Solvent content 2.4 48.81
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 60.653 α = 90 b = 60.653 β = 90 c = 113.389 γ = 120
Diffraction Diffraction Experiment ID # Crystal ID Scattering Type Data Collection Temperature Detector Detector Type Details Collection Date Monochromator Protocol 1 1 x-ray 100 IMAGE PLATE RIGAKU RAXIS IV VariMax Cu HF 2004-08-24 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 ROTATING ANODE RIGAKU 1.54
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 1.55 52.53 99.8 0.04 23.7 10.82 34123 34123 3 3
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 1.55 1.61 99.6 0.341 7.2 10.13 3400
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Starting model Resolution (High) Resolution (Low) Number Reflections (All) 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 pdb entry 1GD7 1.55 52.53 34099 34099 1727 99.7 0.18 0.178 0.208 0.2579 RANDOM 7.929
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] -0.21 -0.11 -0.21 0.32
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 36.975 r_dihedral_angle_4_deg 18.079 r_dihedral_angle_3_deg 10.815 r_dihedral_angle_1_deg 6.318 r_scangle_it 2.218 r_scbond_it 1.473 r_angle_refined_deg 1.282 r_mcangle_it 0.828 r_mcbond_it 0.546 r_nbtor_refined 0.312
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 36.975 r_dihedral_angle_4_deg 18.079 r_dihedral_angle_3_deg 10.815 r_dihedral_angle_1_deg 6.318 r_scangle_it 2.218 r_scbond_it 1.473 r_angle_refined_deg 1.282 r_mcangle_it 0.828 r_mcbond_it 0.546 r_nbtor_refined 0.312 r_nbd_refined 0.193 r_symmetry_vdw_refined 0.186 r_symmetry_hbond_refined 0.118 r_xyhbond_nbd_refined 0.111 r_chiral_restr 0.093 r_bond_refined_d 0.01 r_gen_planes_refined 0.005
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 1677 Nucleic Acid Atoms Solvent Atoms 350 Heterogen Atoms 25
Software Software Software Name Purpose d*TREK data scaling REFMAC refinement PDB_EXTRACT data extraction CrystalClear data collection CrystalClear data reduction PHASER phasing