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Structure of a variable lymphocyte receptor-like protein Bf66946 from Branchiostoma floridae
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 6.2 289 15% (w/v) polyethylene glycol 8000, 0.1 M Bis-Tris pH 6.2
Crystal Properties Matthews coefficient Solvent content 2.39 50.5
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 50.25 α = 90 b = 67.868 β = 90 c = 118.041 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 ADSC QUANTUM 315r 2013-09-23 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON SSRF BEAMLINE BL17U 0.97915 SSRF BL17U
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge I (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 1.79 50 95.4 0.114 0.114 10 4.8 63795 37098
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 1.79 1.85 97.3 0.495 3.6 4.8
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method 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 SAD THROUGHOUT 1.79 50 35225 1854 95.49 0.17959 0.17838 0.1893 0.20226 0.2133 RANDOM 17.726
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] 0.56 -0.54 -0.02
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 36.804 r_dihedral_angle_3_deg 11.31 r_dihedral_angle_4_deg 10.68 r_dihedral_angle_1_deg 5.889 r_long_range_B_refined 4.518 r_long_range_B_other 4.517 r_scangle_other 2.451 r_scbond_it 1.566 r_scbond_other 1.566 r_mcangle_it 1.474
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 36.804 r_dihedral_angle_3_deg 11.31 r_dihedral_angle_4_deg 10.68 r_dihedral_angle_1_deg 5.889 r_long_range_B_refined 4.518 r_long_range_B_other 4.517 r_scangle_other 2.451 r_scbond_it 1.566 r_scbond_other 1.566 r_mcangle_it 1.474 r_mcangle_other 1.474 r_angle_refined_deg 1.252 r_mcbond_it 0.915 r_mcbond_other 0.915 r_angle_other_deg 0.73 r_chiral_restr 0.068 r_bond_refined_d 0.007 r_gen_planes_refined 0.004 r_bond_other_d 0.001 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 2673 Nucleic Acid Atoms Solvent Atoms 366 Heterogen Atoms 18
Software Software Software Name Purpose REFMAC refinement HKL-2000 data processing HKL-2000 data scaling PHENIX phasing HKL-2000 data reduction