☰ Navigation Tabs
Diferric bound human serum transferrin
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 2HAV 2HAV, 1JNF experimental model PDB 1JNF 2HAV, 1JNF
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 7.4 271 0.01M HEPES, 15% PEG3000, pH 7.4, vapor diffusion, sitting drop, temperature 271K
Crystal Properties Matthews coefficient Solvent content 2.49 50.61
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 73.845 α = 90 b = 90.435 β = 90 c = 112.299 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 100 CCD RAYONIX MX-225 2010-06-28 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON SSRF BEAMLINE BL17U 0.97924 SSRF BL17U
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 2.8 50 92.9 0.106 9.2 5.5 17765
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 2.8 2.9 77.4 0.524 2.6 1447
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-Work (DCC) R-Free (Depositor) R-Free (DCC) R-Free Selection Details Mean Isotropic B X-RAY DIFFRACTION MOLECULAR REPLACEMENT THROUGHOUT 2HAV, 1JNF 2.8 40.07 16769 908 92.58 0.20958 0.20616 0.1979 0.27498 0.2673 RANDOM 57.136
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] 0.29 -0.3 0.01
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 35.744 r_dihedral_angle_3_deg 17.862 r_dihedral_angle_4_deg 17.683 r_dihedral_angle_1_deg 6.617 r_mcangle_it 3.466 r_scangle_it 3.399 r_mcbond_it 2.133 r_scbond_it 2.115 r_angle_refined_deg 1.154 r_angle_other_deg 0.838
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 35.744 r_dihedral_angle_3_deg 17.862 r_dihedral_angle_4_deg 17.683 r_dihedral_angle_1_deg 6.617 r_mcangle_it 3.466 r_scangle_it 3.399 r_mcbond_it 2.133 r_scbond_it 2.115 r_angle_refined_deg 1.154 r_angle_other_deg 0.838 r_mcbond_other 0.32 r_chiral_restr 0.064 r_bond_refined_d 0.008 r_gen_planes_refined 0.004 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 5265 Nucleic Acid Atoms Solvent Atoms 8 Heterogen Atoms 43
Software Software Software Name Purpose DENZO data reduction SCALEPACK data scaling REFMAC refinement PDB_EXTRACT data extraction PHASER phasing