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Crystal Structures of the Chicken YF1*7.1 molecule
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 3BEV
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 5 291 0.20 M AmAc, 0.1 M NaAc pH 5.0, 20% PEG 4000, VAPOR DIFFUSION, HANGING DROP, temperature 291K
Crystal Properties Matthews coefficient Solvent content 2.17 43.28
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 52.8 α = 90 b = 55.47 β = 96.85 c = 63.84 γ = 90
Symmetry Space Group P 1 21 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 RAYONIX MX-225 2008-08-07 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON BESSY BEAMLINE 14.1 0.9184 BESSY 14.1
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (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 1.32 20 96 82457 82457
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1.32 1.35 92.8
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 (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 3bev 1.32 19.79 78350 4135 95.98 0.15858 0.15858 0.15694 0.1544 0.18973 0.1869 RANDOM 17.656
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] 0.08 -0.16 0.62 -0.74
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 34.515 r_dihedral_angle_4_deg 20.418 r_dihedral_angle_3_deg 12.561 r_dihedral_angle_1_deg 6.035 r_scangle_it 5.209 r_scbond_it 3.542 r_mcangle_it 2.735 r_mcbond_it 1.71 r_rigid_bond_restr 1.677 r_angle_refined_deg 1.527
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 34.515 r_dihedral_angle_4_deg 20.418 r_dihedral_angle_3_deg 12.561 r_dihedral_angle_1_deg 6.035 r_scangle_it 5.209 r_scbond_it 3.542 r_mcangle_it 2.735 r_mcbond_it 1.71 r_rigid_bond_restr 1.677 r_angle_refined_deg 1.527 r_chiral_restr 0.107 r_bond_refined_d 0.013 r_gen_planes_refined 0.009 r_bond_other_d r_angle_other_deg 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_mcbond_other r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 3008 Nucleic Acid Atoms Solvent Atoms 382 Heterogen Atoms 28
Software Software Software Name Purpose PHASER phasing REFMAC refinement XDS data reduction XSCALE data scaling