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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 3P73
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 5 291 0.24 M AmAc, 0.1 M NaAc pH 5.0, 20% PEG 4000, VAPOR DIFFUSION, HANGING DROP, temperature 291K
Crystal Properties Matthews coefficient Solvent content 2.15 42.67
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 52.87 α = 90 b = 55.04 β = 97.04 c = 63.59 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 14.2 0.9184 BESSY 14.2
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 1.6 20 89.8 43084 43084
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1.6 1.64 93.2
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 3P73 1.6 19.65 40891 40891 2193 89.82 0.17601 0.17601 0.17391 0.181 0.21552 0.2177 RANDOM 13.861
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] 0.03 0.06 -0.05
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 34.642 r_dihedral_angle_4_deg 15.464 r_dihedral_angle_3_deg 13.136 r_dihedral_angle_1_deg 6.171 r_scangle_it 3.26 r_scbond_it 2.065 r_angle_refined_deg 1.403 r_mcangle_it 1.224 r_angle_other_deg 0.835 r_mcbond_it 0.68
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 34.642 r_dihedral_angle_4_deg 15.464 r_dihedral_angle_3_deg 13.136 r_dihedral_angle_1_deg 6.171 r_scangle_it 3.26 r_scbond_it 2.065 r_angle_refined_deg 1.403 r_mcangle_it 1.224 r_angle_other_deg 0.835 r_mcbond_it 0.68 r_mcbond_other 0.2 r_chiral_restr 0.087 r_bond_refined_d 0.012 r_gen_planes_refined 0.006 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_rigid_bond_restr r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 2988 Nucleic Acid Atoms Solvent Atoms 382 Heterogen Atoms 50
Software Software Software Name Purpose MAR345dtb data collection PHASER phasing REFMAC refinement XDS data reduction XSCALE data scaling