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Structure of a Crystal Form of Human Methemoglobin Indicative of Fiber Formation
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1NEJ PDB ENTRY 1NEJ
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 5.5 295 15-30% PEG, pH 4.5-5.5, 0.2 M salt of several varieties, VAPOR DIFFUSION, SITTING DROP, temperature 295K
Crystal Properties Matthews coefficient Solvent content 2.35 47.61
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 54.6 α = 90 b = 54.6 β = 90 c = 677.42 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 MARMOSAIC 325 mm CCD Flat collimating mirror, double crystal monochromator, toroid focusing mirror 2008-05-10 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON SSRL BEAMLINE BL9-2 0.9794 SSRL BL9-2
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 2.6 47.29 85 0.131 7.2 8.13 17172 16326 32.5
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 2.6 2.69 39.6 0.557 1.3 2.65 760
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 1NEJ 3.1 47.29 12177 11863 599 97.4 0.295 0.286 0.284 0.2804 0.325 0.3341 RANDOM 168.8
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] 17.66 17.66 -35.32
RMS Deviations Key Refinement Restraint Deviation c_dihedral_angle_d 19.5 c_scangle_it 7.29 c_mcangle_it 5.37 c_scbond_it 4.59 c_mcbond_it 3.08 c_angle_deg 2 c_improper_angle_d 1.77 c_bond_d 0.024
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 4384 Nucleic Acid Atoms Solvent Atoms Heterogen Atoms 172
Software Software Software Name Purpose MAR345dtb data collection PHASER phasing CNS refinement d*TREK data reduction d*TREK data scaling