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Ligand Migration and Binding in The Dimeric Hemoglobin of Scapharca Inaequivalvis: I25W with CO Bound to HEME and in the Presence of 3 Atoms of XE
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 3SDH PDB ENTRY 3SDH
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 SMALL TUBES 7.5 298 1.5-2.5M PHOSPHATE BUFFER, pH 7.50, SMALL TUBES, temperature 298K
Crystal Properties Matthews coefficient Solvent content 2.11 42
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 92.66 α = 90 b = 43.39 β = 122.02 c = 82.29 γ = 90
Symmetry Space Group C 1 2 1
Diffraction Diffraction Experiment ID # Crystal ID Scattering Type Data Collection Temperature Detector Detector Type Details Collection Date Monochromator Protocol 1 1 x-ray 110 CCD ADSC QUANTUM 315 2005-11-07 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON APS BEAMLINE 14-BM-C 0.9 APS 14-BM-C
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge I (Observed) R Sym 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 1.06 46.3 95.3 0.072 0.072 24.1 4.4 118984
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) 1.06 1.1 90.4 0.286 0.286 5.5
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 PDB ENTRY 3SDH 1.06 46.3 111984 10566 95.3 0.143 0.143 0.1457 0.162 0.1659 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_approx_iso_adps 0.077 s_from_restr_planes 0.0242 s_non_zero_chiral_vol 0.022 s_zero_chiral_vol 0.017 s_angle_d 0.014 s_anti_bump_dis_restr 0.014 s_bond_d 0.004
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 2296 Nucleic Acid Atoms Solvent Atoms 373 Heterogen Atoms 99
Software Software Software Name Purpose SHELX model building SHELXL-97 refinement BIOCARS data collection DENZO data reduction SCALEPACK data scaling