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CcdB dimer from V. fisheri in complex with one C-terminal domain of F-plasmid CcdA
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 3JRZ
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 4.6 293 8% PEG4000, 0.1M CH3COONa.3H2O, pH 4.6, VAPOR DIFFUSION, HANGING DROP, temperature 293K
Crystal Properties Matthews coefficient Solvent content 2.13 42.38
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 46.864 α = 90 b = 62.561 β = 90 c = 81.951 γ = 90
Symmetry Space Group P 21 21 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 MAR CCD 165 mm 2006-10-12 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON EMBL/DESY, HAMBURG BEAMLINE X13 EMBL/DESY, HAMBURG X13
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge I (Observed) R Sym 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 49.8 100 0.075 0.075 15.6 6.2 18030 -3 20.86
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R Merge I (Observed) R-Sym I (Observed) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 1.9 2 100 0.452 0.0452 4.07 6
Refinement Statistics Diffraction ID Structure Solution Method Starting model Resolution (High) Resolution (Low) Cut-off Sigma (F) Number Reflections (All) 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) Mean Isotropic B X-RAY DIFFRACTION MOLECULAR REPLACEMENT 3JRZ 1.93 19.47 1.34 17993 17993 914 96.7 0.195 0.192 0.1886 0.252 0.2461
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] -3.2222 5.0082 -1.786
RMS Deviations Key Refinement Restraint Deviation f_dihedral_angle_d 15.607 f_angle_d 0.602 f_chiral_restr 0.043 f_bond_d 0.002 f_plane_restr 0.002
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 1849 Nucleic Acid Atoms Solvent Atoms 205 Heterogen Atoms 4
Software Software Software Name Purpose MAR345dtb data collection PHASER phasing PHENIX refinement DENZO data reduction SCALEPACK data scaling