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Crystal structure of Mongoose (Helogale parvula) hemoglobin at pH 7.0
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 2RAO
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 7 293 PEG 3350
Crystal Properties Matthews coefficient Solvent content 2.55 50
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 55.92 α = 90 b = 88.21 β = 90 c = 129.16 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 2011-02-22 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 ROTATING ANODE RIGAKU RUH3R 1.5417
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 2.8 30 98.8 10.8 5.5 16199
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 2rao 2.8 30 15374 824 98.91 0.1658 0.1625 0.1604 0.22695 0.1721 RANDOM 17.894
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] 0.26 0.36 -0.61
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 38.573 r_dihedral_angle_3_deg 20.54 r_dihedral_angle_4_deg 15.34 r_dihedral_angle_1_deg 6.052 r_scangle_it 4.196 r_scbond_it 2.423 r_angle_refined_deg 1.663 r_mcangle_it 1.599 r_mcbond_it 0.799 r_chiral_restr 0.117
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 38.573 r_dihedral_angle_3_deg 20.54 r_dihedral_angle_4_deg 15.34 r_dihedral_angle_1_deg 6.052 r_scangle_it 4.196 r_scbond_it 2.423 r_angle_refined_deg 1.663 r_mcangle_it 1.599 r_mcbond_it 0.799 r_chiral_restr 0.117 r_bond_refined_d 0.016 r_gen_planes_refined 0.008 r_bond_other_d r_angle_other_deg r_gen_planes_other 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_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 4420 Nucleic Acid Atoms Solvent Atoms 58 Heterogen Atoms 180
Software Software Software Name Purpose REFMAC refinement XDS data reduction XDS data scaling PHASER phasing