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Crystal structure of Emu (dromaius novaehollandiae) hemoglobin at 2.3 angstrom resolution
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 3FS4
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 7 293 30% PEG 3350, pH 7.0, VAPOR DIFFUSION, HANGING DROP, temperature 293K
Crystal Properties Matthews coefficient Solvent content 2.15 42.83
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 66.271 α = 90 b = 80.01 β = 90 c = 103.559 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 IMAGE PLATE MAR scanner 345 mm plate MIRRORS 2012-09-08 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 ROTATING ANODE BRUKER AXS MICROSTAR-H 1.5418
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 2.3 30 99 0.061 6.4 25129 26.9
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R Merge I (Observed) R-Sym I (Observed) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 2.3 2.38 99 0.061 0.061 6.4 7.3
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-Work (DCC) R-Free (Depositor) R-Free (DCC) R-Free Selection Details Mean Isotropic B X-RAY DIFFRACTION MOLECULAR REPLACEMENT THROUGHOUT 3FS4 2.3 29.36 23787 1259 99.8 0.196 0.192 0.195 0.257 0.2517 RANDOM 29.25
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] -0.13 0.06 0.08
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 35.81 r_dihedral_angle_3_deg 17.603 r_dihedral_angle_4_deg 16.438 r_dihedral_angle_1_deg 5.726 r_scangle_it 3.515 r_scbond_it 2.347 r_angle_refined_deg 1.579 r_mcangle_it 1.483 r_angle_other_deg 0.991 r_mcbond_it 0.789
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 35.81 r_dihedral_angle_3_deg 17.603 r_dihedral_angle_4_deg 16.438 r_dihedral_angle_1_deg 5.726 r_scangle_it 3.515 r_scbond_it 2.347 r_angle_refined_deg 1.579 r_mcangle_it 1.483 r_angle_other_deg 0.991 r_mcbond_it 0.789 r_mcbond_other 0.188 r_chiral_restr 0.095 r_bond_refined_d 0.018 r_gen_planes_refined 0.008 r_bond_other_d 0.001 r_gen_planes_other 0.001
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 4419 Nucleic Acid Atoms Solvent Atoms 360 Heterogen Atoms 180
Software Software Software Name Purpose MAR345dtb data collection PHASER phasing REFMAC refinement AUTOMAR data reduction SCALEPACK data scaling