☰ Navigation Tabs
The crystal structure of APRIL bound to TACI
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1U5Z APRIL alone, pdbcode 1U5Z
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 7.5 292 well solution: 70% MPD, 0.1 M Hepes, pH 7.5, VAPOR DIFFUSION, SITTING DROP, temperature 292K
Crystal Properties Matthews coefficient Solvent content 2.1 40
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 59.339 α = 90 b = 91.839 β = 90 c = 102.268 γ = 90
Symmetry Space Group P 21 21 21
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 SBC-3 2004-06-14 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON APS BEAMLINE 19-BM 0.98040 APS 19-BM
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 1.9 50 99.6 0.086 7.4 6.4 44579 44579 -3 21
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R Merge I (Observed) R-Sym I (Observed) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 1.9 1.97 100 0.347 0.347 3.1 6.5 4416
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Starting model Resolution (High) Resolution (Low) Cut-off Sigma (I) Number Reflections (All) Number Reflections (Observed) Number Reflections (R-Free) Percent Reflections (Observed) R-Factor (All) 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 APRIL alone, pdbcode 1U5Z 1.9 30 -3 44518 40069 4449 99.59 0.1709 0.17087 0.16724 0.1814 0.20317 0.2125 THIN SHELLS 18.42
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] 0.39 -0.37 -0.02
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_1_deg 6.509 r_scangle_it 5.266 r_mcangle_it 4.203 r_scbond_it 3.423 r_mcbond_it 2.558 r_angle_refined_deg 1.216 r_angle_other_deg 0.739 r_nbd_other 0.244 r_symmetry_vdw_other 0.242 r_symmetry_hbond_refined 0.216
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_1_deg 6.509 r_scangle_it 5.266 r_mcangle_it 4.203 r_scbond_it 3.423 r_mcbond_it 2.558 r_angle_refined_deg 1.216 r_angle_other_deg 0.739 r_nbd_other 0.244 r_symmetry_vdw_other 0.242 r_symmetry_hbond_refined 0.216 r_nbd_refined 0.177 r_xyhbond_nbd_refined 0.117 r_chiral_restr 0.087 r_nbtor_other 0.081 r_symmetry_vdw_refined 0.057 r_bond_refined_d 0.009 r_gen_planes_refined 0.005 r_gen_planes_other 0.004 r_bond_other_d 0.002
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 4149 Nucleic Acid Atoms Solvent Atoms 130 Heterogen Atoms 1
Software Software Software Name Purpose REFMAC refinement HKL-2000 data reduction SCALEPACK data scaling AMoRE phasing