☰ Navigation Tabs
Structure of pHis Fab (SC1-1) in complex with pHis mimetic peptide
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 5DTF
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 6.29 293 35 % 2-methyl-2,4-pentanediol, 0.1 M MES pH 6.29, 0.2 M Lithium sulfate
Crystal Properties Matthews coefficient Solvent content 2.59 52.52
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 86.79 α = 90 b = 72.251 β = 95.83 c = 156.747 γ = 90
Symmetry Space Group P 1 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 PILATUS3 S 6M 2016-10-15 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON APS BEAMLINE 23-ID-D 1.03315 APS 23-ID-D
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge I (Observed) Rrim I (All) 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 1.65 46.72 100 0.116 0.126 0.05 0.856 14.5 6 230655 19.8
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R Merge I (Observed) Rrim I (All) Rpim I (All) CC (Half) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 1.65 1.68 99.5 1.3 1.44 0.613 0.374 1 5.1
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-Free (Depositor) R-Free (DCC) R-Free Selection Details Mean Isotropic B X-RAY DIFFRACTION MOLECULAR REPLACEMENT THROUGHOUT 5dtf 1.65 46.72 219191 11408 98.83 0.2012 0.1999 0.2257 0.232 RANDOM 23.44
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] 0.19 -0.46 -0.92 0.81
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 34.98 r_dihedral_angle_4_deg 16.436 r_dihedral_angle_3_deg 10.93 r_dihedral_angle_1_deg 7.067 r_mcangle_it 3.894 r_mcbond_it 3.04 r_mcbond_other 3.04 r_angle_other_deg 2.4 r_angle_refined_deg 1.815 r_chiral_restr 0.078
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 34.98 r_dihedral_angle_4_deg 16.436 r_dihedral_angle_3_deg 10.93 r_dihedral_angle_1_deg 7.067 r_mcangle_it 3.894 r_mcbond_it 3.04 r_mcbond_other 3.04 r_angle_other_deg 2.4 r_angle_refined_deg 1.815 r_chiral_restr 0.078 r_bond_other_d 0.036 r_bond_refined_d 0.016 r_gen_planes_other 0.006 r_gen_planes_refined 0.005
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 12962 Nucleic Acid Atoms Solvent Atoms 1027 Heterogen Atoms 239
Software Software Software Name Purpose REFMAC refinement PDB_EXTRACT data extraction HKL-2000 data reduction HKL-2000 data scaling PHASER phasing