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Crystal structure of monocarboxylated hemoglobin from the sub-Antarctic fish Eleginops maclovinus
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 4ESA
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 MICRODIALYSIS 277 CO atmosphere , 20 mg/ml protein, 1.8 M ammonium sulfate
Crystal Properties Matthews coefficient Solvent content 3.25 62.11
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 91.702 α = 90 b = 91.702 β = 90 c = 168.716 γ = 120
Symmetry Space Group P 61 2 2
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 MAR CCD 130 mm 2010-05-07 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON ELETTRA BEAMLINE 5.2R 1.0 ELETTRA 5.2R
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge I (Observed) Rpim I (All) 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 1.49 79.42 96.4 0.095 0.057 8 3.2 66710
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R Merge I (Observed) Rpim I (All) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 1.49 1.53 0.44 0.295
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 (DCC) R-Free Selection Details Mean Isotropic B X-RAY DIFFRACTION MOLECULAR REPLACEMENT THROUGHOUT 4ESA 1.49 79.42 55106 2917 84.12 0.16974 0.16835 0.19577 0.2713 RANDOM 34.598
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 r_dihedral_angle_2_deg 42.35 r_dihedral_angle_4_deg 17.412 r_dihedral_angle_3_deg 14.208 r_long_range_B_refined 7.47 r_long_range_B_other 7.251 r_scangle_other 6.395 r_dihedral_angle_1_deg 4.888 r_scbond_it 4.473 r_scbond_other 4.364 r_mcangle_other 2.837
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 42.35 r_dihedral_angle_4_deg 17.412 r_dihedral_angle_3_deg 14.208 r_long_range_B_refined 7.47 r_long_range_B_other 7.251 r_scangle_other 6.395 r_dihedral_angle_1_deg 4.888 r_scbond_it 4.473 r_scbond_other 4.364 r_mcangle_other 2.837 r_mcangle_it 2.829 r_mcbond_it 2.247 r_mcbond_other 2.225 r_angle_refined_deg 2.136 r_angle_other_deg 1.117 r_chiral_restr 0.151 r_bond_refined_d 0.022 r_gen_planes_refined 0.012 r_gen_planes_other 0.007 r_bond_other_d 0.003 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_scangle_it r_rigid_bond_restr r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 2214 Nucleic Acid Atoms Solvent Atoms 389 Heterogen Atoms 116
Software Software Software Name Purpose REFMAC refinement HKL-2000 data reduction HKL-2000 data scaling PHASER phasing