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mammalian blood serum haemopexin glycosylated-native protein and in complex with its ligand haem
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1HXN 1HXN AND 1FBL experimental model PDB 1FBL 1HXN AND 1FBL
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 7.9 277 HANGING DROP, 4 DEGREES CENTIGRADE. RESEVOIR SOLUTION: 15-22% PEG 6000, 0.1-0.2 M TRIS HCL PH 7.9, 0.05-0.1 M EDTA, 0.05-0.2 NACL, PROTEIN COMPLEX SOLUTION: 65 MG/ML IN 0.01 M TRIS PH 7.9, 0.01 M NACL, 0.1 M EDTA
Crystal Properties Matthews coefficient Solvent content 2.04 40
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 103.9 α = 90 b = 69.9 β = 108.16 c = 151.81 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 IMAGE PLATE RIGAKU IMAGE PLATE COLLIMATOR 1997-06-15 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 ROTATING ANODE
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 2.9 20 97.5 0.064 6.2 2.2 20915 44
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 2.9 3.05 87.5 0.251 2.2 2
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Starting model Resolution (High) Resolution (Low) Cut-off Sigma (F) Number Reflections (Observed) Number Reflections (R-Free) Percent Reflections (Observed) R-Factor (Observed) R-Work (Depositor) R-Work (DCC) R-Free (Depositor) R-Free Selection Details Mean Isotropic B X-RAY DIFFRACTION SIR THROUGHOUT 1HXN AND 1FBL 2.9 20 2.5 20915 101 97.5 0.251 0.255 0.3596 0.312 RANDOM 39
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]
RMS Deviations Key Refinement Restraint Deviation p_transverse_tor 29.5 p_staggered_tor 23.5 p_planar_tor 15.1 p_multtor_nbd 0.235 p_singtor_nbd 0.193 p_angle_d 0.041 p_bond_d 0.013 p_angle_deg p_planar_d p_hb_or_metal_coord
RMS Deviations Key Refinement Restraint Deviation p_transverse_tor 29.5 p_staggered_tor 23.5 p_planar_tor 15.1 p_multtor_nbd 0.235 p_singtor_nbd 0.193 p_angle_d 0.041 p_bond_d 0.013 p_angle_deg p_planar_d p_hb_or_metal_coord p_mcbond_it p_mcangle_it p_scbond_it p_scangle_it p_plane_restr p_chiral_restr p_xhyhbond_nbd p_xyhbond_nbd p_orthonormal_tor p_special_tor
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 6578 Nucleic Acid Atoms Solvent Atoms Heterogen Atoms 108
Software Software Software Name Purpose DENZO data reduction Agrovata data scaling ROTAVATA data scaling AMoRE phasing MAMA phasing REFMAC refinement