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Crystal structure of murine neuroglobin under Kr pressure
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1Q1F PDB ENTRY 1Q1F
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 6.5 293 1.6M ammonium sulphate, 0.1M MES, pH6.5, 10% dioxane, VAPOR DIFFUSION, HANGING DROP, temperature 293K
Crystal Properties Matthews coefficient Solvent content 2.49 50.56
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 88.8 α = 90 b = 88.8 β = 90 c = 113.5 γ = 120
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 225 mm CCD 2007-10-11 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON BESSY BEAMLINE 14.1 0.86437 BESSY 14.1
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 1.86 30 99.7 0.05 6.17 14316 3 3 35.127
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 1.86 2.1 100 0.35 5.03
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 FOURIER SYNTHESIS THROUGHOUT PDB ENTRY 1Q1F 1.86 19.55 14315 13599 716 100 0.256 0.17451 0.17275 0.1727 0.20839 0.2102 RANDOM 28.535
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] -0.25 -0.13 -0.25 0.38
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 31.319 r_dihedral_angle_4_deg 14.071 r_dihedral_angle_3_deg 13.731 r_dihedral_angle_1_deg 4.539 r_scangle_it 2.807 r_scbond_it 2.033 r_angle_refined_deg 1.452 r_mcangle_it 1.283 r_mcbond_it 0.761 r_nbtor_refined 0.298
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 31.319 r_dihedral_angle_4_deg 14.071 r_dihedral_angle_3_deg 13.731 r_dihedral_angle_1_deg 4.539 r_scangle_it 2.807 r_scbond_it 2.033 r_angle_refined_deg 1.452 r_mcangle_it 1.283 r_mcbond_it 0.761 r_nbtor_refined 0.298 r_xyhbond_nbd_refined 0.269 r_nbd_refined 0.218 r_symmetry_hbond_refined 0.184 r_symmetry_vdw_refined 0.166 r_metal_ion_refined 0.113 r_chiral_restr 0.089 r_bond_refined_d 0.016 r_gen_planes_refined 0.006
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 1149 Nucleic Acid Atoms Solvent Atoms 75 Heterogen Atoms 50
Software Software Software Name Purpose HKL-2000 data collection REFMAC refinement XDS data reduction XSCALE data scaling REFMAC phasing