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Structure of non-fluorescent human plasma RBP4
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1BRQ
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 MICRODIALYSIS 279 4.5M NaCl, 20mM Na cacodylate, pH 6.8
Crystal Properties Matthews coefficient Solvent content 3.65 66.31
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 103.77 α = 90 b = 103.77 β = 90 c = 73.94 γ = 120
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-F 2015-07-16 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON ESRF BEAMLINE ID29 1.0 ESRF ID29
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 40 98.5 0.106 7.9 4.4 19780
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 2.11 98.3 0.491 2.5 4.2
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 1brq 2 30 18786 990 98.52 0.17501 0.17198 0.2171 0.23031 0.2372 RANDOM 55.543
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] -1.17 -0.59 -1.17 3.81
RMS Deviations Key Refinement Restraint Deviation r_sphericity_bonded 34.557 r_dihedral_angle_2_deg 32.524 r_sphericity_free 30.891 r_rigid_bond_restr 20.267 r_long_range_B_other 16.626 r_long_range_B_refined 16.558 r_scangle_other 15.869 r_dihedral_angle_3_deg 14.773 r_dihedral_angle_4_deg 14.75 r_scbond_it 14.555
RMS Deviations Key Refinement Restraint Deviation r_sphericity_bonded 34.557 r_dihedral_angle_2_deg 32.524 r_sphericity_free 30.891 r_rigid_bond_restr 20.267 r_long_range_B_other 16.626 r_long_range_B_refined 16.558 r_scangle_other 15.869 r_dihedral_angle_3_deg 14.773 r_dihedral_angle_4_deg 14.75 r_scbond_it 14.555 r_scbond_other 14.546 r_mcangle_other 13.655 r_mcangle_it 13.651 r_mcbond_it 12.634 r_mcbond_other 12.625 r_dihedral_angle_1_deg 9.096 r_angle_other_deg 1.136 r_angle_refined_deg 0.605 r_chiral_restr 0.032 r_bond_other_d 0.005 r_bond_refined_d 0.003 r_gen_planes_refined 0.002 r_gen_planes_other 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
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 1408 Nucleic Acid Atoms Solvent Atoms 78 Heterogen Atoms 19
Software Software Software Name Purpose REFMAC refinement MOSFLM data reduction SCALA data scaling MOLREP phasing