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The crystal structure of the outer membrane protein VceC from the bacterial pathogen Vibrio cholerae at 1.8 resolution
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 7 295 MPD, Tris, NaCl, beta-DDM, octyl-beta-glucoside, pH 7.0, VAPOR DIFFUSION, HANGING DROP, temperature 295.0K
Crystal Properties Matthews coefficient Solvent content 3.16 60.82
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 71.458 α = 90 b = 71.458 β = 90 c = 190.702 γ = 120
Symmetry Space Group P 3 2 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 4 2004-10-02 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON ESRF BEAMLINE ID14-4 0.9686 ESRF ID14-4
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (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 63.6 100 53358 53358
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 1.8 100
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Resolution (High) Resolution (Low) Number Reflections (All) Number Reflections (Observed) Number Reflections (R-Free) Percent Reflections (Observed) R-Factor (All) 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 1.8 63.6 53358 53358 2708 99.96 0.19038 0.19038 0.1887 0.2022 0.22119 0.2313 RANDOM 23.748
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] 1.8 0.9 1.8 -2.7
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_1_deg 8.832 r_scangle_it 5.175 r_scbond_it 3.202 r_mcangle_it 1.939 r_angle_refined_deg 1.751 r_mcbond_it 1.089 r_angle_other_deg 1.055 r_symmetry_vdw_other 0.302 r_nbd_other 0.258 r_chiral_restr 0.254
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_1_deg 8.832 r_scangle_it 5.175 r_scbond_it 3.202 r_mcangle_it 1.939 r_angle_refined_deg 1.751 r_mcbond_it 1.089 r_angle_other_deg 1.055 r_symmetry_vdw_other 0.302 r_nbd_other 0.258 r_chiral_restr 0.254 r_xyhbond_nbd_refined 0.236 r_symmetry_vdw_refined 0.232 r_nbd_refined 0.219 r_symmetry_hbond_refined 0.155 r_nbtor_other 0.091 r_bond_refined_d 0.019 r_gen_planes_refined 0.008 r_gen_planes_other 0.003 r_bond_other_d 0.002
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 3125 Nucleic Acid Atoms Solvent Atoms 315 Heterogen Atoms 22
Software Software Software Name Purpose REFMAC refinement DENZO data reduction SCALEPACK data scaling CNS phasing