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X-ray structure of carbonmonoxy hemoglobin of Eleginops maclovinus
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 3GKV PDB ENTRY 3gkv
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 MICRODIALYSIS 8 298 10 ml protein solution at 20 mg/ml 1 in 100 mM Tris HCl
buffer and 2 mM sodium dithionite was dialyzed against a
25 ml reservoir containing 2 M ammonium sulfate, 100 mM Tris HCl, 2 mM sodium dithionite, pH 8.0, MICRODIALYSIS, temperature 298K
Crystal Properties Matthews coefficient Solvent content 2.48 50.36
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 58.175 α = 90 b = 88.075 β = 90 c = 123.194 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 CCD MAR CCD 165 mm mirrors 2009-07-04 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) 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 1.45 50 97.3 0.075 37.5 3.5 109738 109671
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 1.45 1.5 90.8 0.382 3.3 2.5
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Starting model Resolution (High) Resolution (Low) Number Reflections (All) Number Reflections (Observed) Number Reflections (R-Free) Percent Reflections (Observed) R-Factor (All) 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 PDB ENTRY 3gkv 1.45 50 109671 109671 7491 0.214 0.212 0.212 0.1887 0.253 0.1937 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_angle_d 2.008 s_bond_d 0.009
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 4452 Nucleic Acid Atoms Solvent Atoms 408 Heterogen Atoms 186
Software Software Software Name Purpose HKL-2000 data collection AMoRE phasing SHELXL refinement HKL-2000 data reduction HKL-2000 data scaling