☰ Navigation Tabs
Klebsiella pneumoniae OmpK35
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 4GCP
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 6.5 295 13% PEG 2000MME, 0.1 M calcium chloride, 0.1 M Tris
Crystal Properties Matthews coefficient Solvent content 2.81 56
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 77.312 α = 90 b = 77.312 β = 90 c = 114.044 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 PIXEL DECTRIS PILATUS 6M-F 2014-09-26 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON DIAMOND BEAMLINE I04-1 0.92 Diamond I04-1
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) Rpim I (All) 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 1.5 43.41 99.8 0.044 14.3 5.1 61689
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) Rpim I (All) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 1.5 1.53 100 5.21 2 4.7
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 4GCP 1.5 43.41 59653 1864 99.72 0.15763 0.1568 0.1667 0.18476 0.1938 RANDOM 19.891
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] 0.33 0.17 0.33 -1.08
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 37.321 r_dihedral_angle_4_deg 16.225 r_dihedral_angle_3_deg 11.74 r_dihedral_angle_1_deg 6.79 r_long_range_B_refined 5.591 r_long_range_B_other 5.59 r_scangle_other 2.528 r_angle_refined_deg 2.087 r_scbond_it 1.674 r_scbond_other 1.673
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 37.321 r_dihedral_angle_4_deg 16.225 r_dihedral_angle_3_deg 11.74 r_dihedral_angle_1_deg 6.79 r_long_range_B_refined 5.591 r_long_range_B_other 5.59 r_scangle_other 2.528 r_angle_refined_deg 2.087 r_scbond_it 1.674 r_scbond_other 1.673 r_mcangle_it 1.268 r_mcangle_other 1.268 r_angle_other_deg 1.068 r_mcbond_it 0.812 r_mcbond_other 0.812 r_chiral_restr 0.224 r_bond_refined_d 0.021 r_gen_planes_refined 0.011 r_bond_other_d 0.002 r_gen_planes_other 0.001 r_nbd_refined r_nbd_other r_nbtor_refined r_nbtor_other r_xyhbond_nbd_refined r_xyhbond_nbd_other r_metal_ion_refined r_metal_ion_other r_symmetry_vdw_refined r_symmetry_vdw_other r_symmetry_hbond_refined r_symmetry_hbond_other r_symmetry_metal_ion_refined r_symmetry_metal_ion_other r_scangle_it r_rigid_bond_restr r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 2637 Nucleic Acid Atoms Solvent Atoms 284 Heterogen Atoms 39
Software Software Software Name Purpose REFMAC refinement XDS data reduction XDS data scaling MOLREP phasing