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Crystal structure of Zebrafish Ileal Bile Acid-Bindin Protein complexed with cholic acid (crystal form A).
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 3ELX
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 7 293 1.1 M tri-sodium citrate dihydrate., pH 7.0, VAPOR DIFFUSION, SITTING DROP, temperature 293K
Crystal Properties Matthews coefficient Solvent content 2.6 52.61
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 149.195 α = 90 b = 80.29 β = 96.12 c = 39.723 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 100 CCD ADSC QUANTUM 315 Toroidal mirror 2006-03-22 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON ESRF BEAMLINE ID29 0.93 ESRF ID29
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 2.2 40 96.4 0.06 0.06 16.3 2.9 22845 22845 37.7
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 2.2 2.32 84.4 0.347 0.347 2.3 2.5 2885
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 (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 3ELX 2.2 30 22837 21673 1164 96.28 0.22404 0.22404 0.22181 0.2166 0.26426 0.2573 RANDOM 35.916
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] 1.09 -0.33 0.02 -1.18
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 38.894 r_dihedral_angle_4_deg 21.47 r_dihedral_angle_3_deg 17.147 r_dihedral_angle_1_deg 5.706 r_angle_refined_deg 1.462 r_scangle_it 1.366 r_scbond_it 0.921 r_mcangle_it 0.65 r_mcbond_it 0.357 r_nbtor_refined 0.328
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 38.894 r_dihedral_angle_4_deg 21.47 r_dihedral_angle_3_deg 17.147 r_dihedral_angle_1_deg 5.706 r_angle_refined_deg 1.462 r_scangle_it 1.366 r_scbond_it 0.921 r_mcangle_it 0.65 r_mcbond_it 0.357 r_nbtor_refined 0.328 r_nbd_refined 0.201 r_symmetry_vdw_refined 0.175 r_xyhbond_nbd_refined 0.126 r_symmetry_hbond_refined 0.12 r_chiral_restr 0.091 r_bond_refined_d 0.01 r_gen_planes_refined 0.003
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 3090 Nucleic Acid Atoms Solvent Atoms 70 Heterogen Atoms 377
Software Software Software Name Purpose ADSC data collection MOLREP phasing REFMAC refinement MOSFLM data reduction SCALA data scaling