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ENGINEERED LIPOCALIN DIGA16 IN COMPLEX WITH DIGOXIGENIN
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1BBP pdb entry 1BBP
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 8 298 0.1-M HEPES, 10% ISOPROPANOL, 19% PEG 4000, pH 8.00, VAPOR DIFFUSION, HANGING DROP, temperature 298K
Crystal Properties Matthews coefficient Solvent content 2.5 51.1
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 75.052 α = 90 b = 63.988 β = 91.53 c = 39.452 γ = 90
Symmetry Space Group C 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 298 IMAGE PLATE MAR scanner 345 mm plate OSMIC MIRRORS 2001-03-03 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 ROTATING ANODE RIGAKU RU300
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 99 96.7 0.06 22 2.2 14294 14294 -3
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R-Sym I (Observed) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1.9 1.97 96.1 0.22 6 1.9 1411
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Starting model Resolution (High) Resolution (Low) Number Reflections (All) 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 FOURIER SYNTHESIS THROUGHOUT pdb entry 1BBP 1.9 48.8 14330 13599 731 96.9 0.18808 0.18495 0.1858 0.24753 0.245 RANDOM 33.566
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] -0.02 0.14 -1.61 1.64
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 16.879 r_scangle_it 8.136 r_mcangle_it 6.837 r_scbond_it 5.709 r_dihedral_angle_1_deg 5.123 r_mcbond_it 4.556 r_angle_refined_deg 1.541 r_symmetry_vdw_refined 0.314 r_nbd_refined 0.209 r_xyhbond_nbd_refined 0.179
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 16.879 r_scangle_it 8.136 r_mcangle_it 6.837 r_scbond_it 5.709 r_dihedral_angle_1_deg 5.123 r_mcbond_it 4.556 r_angle_refined_deg 1.541 r_symmetry_vdw_refined 0.314 r_nbd_refined 0.209 r_xyhbond_nbd_refined 0.179 r_chiral_restr 0.152 r_symmetry_hbond_refined 0.135 r_bond_refined_d 0.017 r_gen_planes_refined 0.008 r_bond_other_d r_angle_other_deg r_gen_planes_other r_nbd_other r_nbtor_other r_xyhbond_nbd_other r_symmetry_vdw_other r_symmetry_hbond_other r_rigid_bond_restr r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 1245 Nucleic Acid Atoms Solvent Atoms 58 Heterogen Atoms 28
Software Software Software Name Purpose REFMAC refinement SCALEPACK data scaling CNS refinement DENZO data reduction CNS phasing