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Mouse Neuroglobin with heme iron in the reduced ferrous state
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 6.5 293 1.6 M AMMONIUM SULFATE, 0.1 MMES, PH 6.5, 10% V/V DIOXANE, 293K
Crystal Properties Matthews coefficient Solvent content 2.49 50.6
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 87.92 α = 90 b = 87.92 β = 90 c = 113.646 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 MARRESEARCH 2007-03-14 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON BESSY BEAMLINE 14.2 BESSY 14.2
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 1.93 50 98 0.05 11.7 6.8 12881 3 29.2
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 1.93 2 99.6 0.4 3.7 5.3
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 1Q1F 1.87 63.25 13093 692 97 0.187 0.185 0.1871 0.217 0.221 RANDOM 30.65
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] -0.07 -0.03 -0.07 0.1
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 29.948 r_dihedral_angle_3_deg 14.465 r_dihedral_angle_4_deg 13.175 r_dihedral_angle_1_deg 4.574 r_scangle_it 2.947 r_scbond_it 2.168 r_angle_refined_deg 1.521 r_mcangle_it 1.393 r_mcbond_it 0.842 r_symmetry_hbond_refined 0.449
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 29.948 r_dihedral_angle_3_deg 14.465 r_dihedral_angle_4_deg 13.175 r_dihedral_angle_1_deg 4.574 r_scangle_it 2.947 r_scbond_it 2.168 r_angle_refined_deg 1.521 r_mcangle_it 1.393 r_mcbond_it 0.842 r_symmetry_hbond_refined 0.449 r_nbtor_refined 0.303 r_nbd_refined 0.226 r_xyhbond_nbd_refined 0.202 r_symmetry_vdw_refined 0.201 r_chiral_restr 0.102 r_bond_refined_d 0.016 r_gen_planes_refined 0.006 r_bond_other_d r_angle_other_deg r_gen_planes_other r_nbd_other r_nbtor_other r_xyhbond_nbd_other r_metal_ion_refined r_metal_ion_other r_symmetry_vdw_other r_symmetry_hbond_other r_symmetry_metal_ion_refined r_symmetry_metal_ion_other r_mcbond_other r_mcangle_other r_scbond_other r_scangle_other r_long_range_B_refined r_long_range_B_other r_rigid_bond_restr r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 1134 Nucleic Acid Atoms Solvent Atoms 74 Heterogen Atoms 53
Software Software Software Name Purpose REFMAC refinement HKL-2000 data reduction SCALEPACK data scaling REFMAC phasing