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The crystal structure of hemoglobin I from Trematomus newnesi in deoxygenated state obtained through an oxidation/reduction cycle in which potassium hexacyanoferrate and sodium dithionite were alternatively added
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 2H8F PDB entry 2H8F
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 LIQUID DIFFUSION 6 293 protein at 10 mg/ml, in a 100 mM sodium acetate buffer pH 6.0, 2mM dithionite,
poured into a capillary containing 20% (w/v) MPEG 5000 (2 mM dithionite), LIQUID DIFFUSION, temperature 293K
Crystal Properties Matthews coefficient Solvent content 2.8 56.06
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 61.882 α = 90 b = 61.882 β = 90 c = 187.014 γ = 90
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 ENRAF-NONIUS mirrors 2010-01-01 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 ROTATING ANODE RIGAKU MICROMAX-007 HF 1.5418
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 2.2 26.6 32263
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-Work (Depositor) R-Work (DCC) R-Free (Depositor) R-Free (DCC) R-Free Selection Details Mean Isotropic B X-RAY DIFFRACTION MOLECULAR REPLACEMENT THROUGHOUT PDB entry 2H8F 2.2 26.6 32075 1607 90.9 0.195 0.1929 0.247 0.1964 RANDOM
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 s_bond_d s_angle_d s_similar_dist s_from_restr_planes s_zero_chiral_vol s_non_zero_chiral_vol s_anti_bump_dis_restr s_rigid_bond_adp_cmpnt s_similar_adp_cmpnt s_approx_iso_adps
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 4494 Nucleic Acid Atoms Solvent Atoms 105 Heterogen Atoms 172
Software Software Software Name Purpose CrystalClear data collection AMoRE phasing SHELXL-97 refinement DENZO data reduction SCALEPACK data scaling