☰ Navigation Tabs
Tailspike protein mutant D339A of E. coli bacteriophage HK620 IN COMPLEX WITH PENTASACCHARIDE
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 4XM3
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 8.5 298 0.1 M Tris-HCl, 3.5 M Sodiumformate
Crystal Properties Matthews coefficient Solvent content 2.15 42.71
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 74.21 α = 90 b = 74.21 β = 90 c = 174.654 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 PIXEL DECTRIS PILATUS 6M mirrors 2014-01-28 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON BESSY BEAMLINE 14.1 0.91841 BESSY 14.1
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge I (Observed) Rpim I (All) CC (Half) 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 1.47 43.66 99.5 0.066 0.036 0.999 11.9 3.9 95097
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R Merge I (Observed) Rpim I (All) CC (Half) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 1.47 1.5 99.5 0.558 0.37 0.666 1.9 3.1 4669
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 4xm3 1.47 43.66 95097 4760 99.34 0.1416 0.1402 0.1401 0.167 0.1669 RANDOM 16.398
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] 0.29 0.14 0.29 -0.94
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 36.089 r_dihedral_angle_4_deg 17.362 r_dihedral_angle_3_deg 11.151 r_dihedral_angle_1_deg 7.564 r_angle_refined_deg 1.883 r_mcangle_it 1.016 r_angle_other_deg 0.947 r_mcbond_other 0.728 r_mcbond_it 0.726 r_chiral_restr 0.13
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 36.089 r_dihedral_angle_4_deg 17.362 r_dihedral_angle_3_deg 11.151 r_dihedral_angle_1_deg 7.564 r_angle_refined_deg 1.883 r_mcangle_it 1.016 r_angle_other_deg 0.947 r_mcbond_other 0.728 r_mcbond_it 0.726 r_chiral_restr 0.13 r_bond_refined_d 0.02 r_gen_planes_refined 0.011 r_gen_planes_other 0.002 r_bond_other_d 0.001
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 4552 Nucleic Acid Atoms Solvent Atoms 829 Heterogen Atoms 83
Software Software Software Name Purpose XDS data reduction Aimless data scaling REFMAC phasing ARP model building Coot model building REFMAC refinement PDB_EXTRACT data extraction