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Structure of recombinant human lactoferrin produced in the milk of transgenic cows
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1LFG PDB ENTRY 1LFG
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 8.5 5 MM SODIUM PHOSPHATE PH 8.5, 10% (V/V) ETHANOL
Crystal Properties Matthews coefficient Solvent content 2.79 55.62
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 55.941 α = 90 b = 97.379 β = 90 c = 156.297 γ = 90
Symmetry Space Group P 21 21 21
Diffraction Diffraction Experiment ID # Crystal ID Scattering Type Data Collection Temperature Detector Detector Type Details Collection Date Monochromator Protocol 1 1 x-ray 295 IMAGE PLATE MARRESEARCH OSMIC MIRRORS 2003-10-29 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 ROTATING ANODE ENRAF-NONIUS FR591
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 2.4 81.65 96.2 0.06 8.9 3.3 33492 3.5
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 2.4 2.53 97.9 0.33 2.2 3.3
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-Free (Depositor) R-Free Selection Details Mean Isotropic B X-RAY DIFFRACTION MOLECULAR REPLACEMENT THROUGHOUT PDB ENTRY 1LFG 2.4 19.63 30833 1640 95.1 0.184 0.181 0.231 RANDOM 50.28
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] 2.66 -0.5 -2.16
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 37.46 r_dihedral_angle_3_deg 19.712 r_dihedral_angle_4_deg 18.94 r_dihedral_angle_1_deg 6.101 r_scangle_it 3.48 r_scbond_it 2.115 r_mcangle_it 1.666 r_angle_refined_deg 1.396 r_mcbond_it 0.963 r_nbtor_refined 0.304
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 37.46 r_dihedral_angle_3_deg 19.712 r_dihedral_angle_4_deg 18.94 r_dihedral_angle_1_deg 6.101 r_scangle_it 3.48 r_scbond_it 2.115 r_mcangle_it 1.666 r_angle_refined_deg 1.396 r_mcbond_it 0.963 r_nbtor_refined 0.304 r_symmetry_hbond_refined 0.225 r_nbd_refined 0.206 r_symmetry_vdw_refined 0.192 r_xyhbond_nbd_refined 0.149 r_chiral_restr 0.102 r_metal_ion_refined 0.068 r_bond_refined_d 0.013 r_gen_planes_refined 0.004 r_bond_other_d r_angle_other_deg r_gen_planes_other r_nbd_other r_nbtor_other r_xyhbond_nbd_other r_metal_ion_other r_symmetry_vdw_other r_symmetry_hbond_other r_symmetry_metal_ion_refined r_symmetry_metal_ion_other r_mcbond_other r_mcangle_other r_scbond_other r_scangle_other r_long_range_B_refined r_long_range_B_other r_rigid_bond_restr r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 5357 Nucleic Acid Atoms Solvent Atoms 54 Heterogen Atoms 38
Software Software Software Name Purpose REFMAC refinement MOSFLM data reduction SCALA data scaling MOLREP phasing