☰ Navigation Tabs
Crystal structure of E.coli OmpF porin in lipidic cubic phase: space group H32, large unit cell
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 2OMF
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 5.6 296 0.1M sodium citrate, 0.7M sodium tartrate, 1.0M potassium thiocyanate, pH 5.6, lipidic sponge phase, temperature 296K
Crystal Properties Matthews coefficient Solvent content 3.17 61.21
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 85.71 α = 90 b = 85.71 β = 90 c = 332.941 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 CCD MARMOSAIC 225 mm CCD mirrors 2008-11-20 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON SLS BEAMLINE X06DA 1.00 SLS X06DA
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (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 2.8 19.99 99.7 0.329 6.8 9 12017 12017 52.1
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R Merge I (Observed) R-Sym I (Observed) Rrim I (All) Rpim I (All) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 2.8 2.95 100 0.014 1.441 1.524 0.492 0.5 9.5 1724
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-Work (DCC) R-Free (Depositor) R-Free (DCC) R-Free Selection Details Mean Isotropic B X-RAY DIFFRACTION MOLECULAR REPLACEMENT THROUGHOUT 2OMF 2.8 19.99 12005 12005 573 99.9 0.1982 0.1955 0.1995 0.2515 0.2582 RANDOM 48.0181
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] -0.17 -0.09 -0.17 0.26
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 37.076 r_dihedral_angle_3_deg 17.266 r_dihedral_angle_4_deg 15.837 r_dihedral_angle_1_deg 6.937 r_scangle_it 3.015 r_scbond_it 1.83 r_angle_refined_deg 1.646 r_mcangle_it 1.248 r_mcbond_it 0.651 r_chiral_restr 0.103
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 37.076 r_dihedral_angle_3_deg 17.266 r_dihedral_angle_4_deg 15.837 r_dihedral_angle_1_deg 6.937 r_scangle_it 3.015 r_scbond_it 1.83 r_angle_refined_deg 1.646 r_mcangle_it 1.248 r_mcbond_it 0.651 r_chiral_restr 0.103 r_bond_refined_d 0.015 r_gen_planes_refined 0.006
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 2627 Nucleic Acid Atoms Solvent Atoms 104 Heterogen Atoms 80
Software Software Software Name Purpose MOSFLM data reduction SCALA data scaling PHASER phasing REFMAC refinement PDB_EXTRACT data extraction