☰ Navigation Tabs
R195K E. coli MenE with bound OSB-AMS
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 3IPL 3IPL and 1T5D experimental model PDB 1T5D 3IPL and 1T5D
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 8.5 298 18-22% Peg 4,000
0.2 M MgCl2
0.1 M Tris
Crystal Properties Matthews coefficient Solvent content 2.54 51.6
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 126.06 α = 90 b = 126.06 β = 90 c = 111.752 γ = 120
Symmetry Space Group P 31 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 270 2004-05-02 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON NSLS BEAMLINE X6A 1.078 NSLS X6A
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 2.4 50 99.9 0.108 20.3 12.3 38130
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 2.4 2.44 99.9 0.924 2.2 11.1
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 3IPL and 1T5D 2.401 41.26 38130 2015 99.28 0.2026 0.20019 0.2055 0.24717 0.2473 RANDOM 38.891
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] 0.15 0.08 0.15 -0.5
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 34.631 r_dihedral_angle_4_deg 17.462 r_dihedral_angle_3_deg 14.576 r_dihedral_angle_1_deg 6.184 r_long_range_B_refined 4.323 r_long_range_B_other 4.323 r_mcangle_it 2.58 r_mcangle_other 2.579 r_scangle_other 2.473 r_mcbond_it 1.537
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 34.631 r_dihedral_angle_4_deg 17.462 r_dihedral_angle_3_deg 14.576 r_dihedral_angle_1_deg 6.184 r_long_range_B_refined 4.323 r_long_range_B_other 4.323 r_mcangle_it 2.58 r_mcangle_other 2.579 r_scangle_other 2.473 r_mcbond_it 1.537 r_mcbond_other 1.537 r_scbond_it 1.445 r_scbond_other 1.445 r_angle_refined_deg 1.163 r_angle_other_deg 0.745 r_chiral_restr 0.063 r_bond_refined_d 0.006 r_gen_planes_refined 0.004 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 6854 Nucleic Acid Atoms Solvent Atoms 224 Heterogen Atoms 79
Software Software Software Name Purpose REFMAC refinement HKL-2000 data reduction HKL-2000 data scaling MOLREP phasing