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Crystal Structure of "Truncated" Hemoglobin N (HbN) from Mycobacterium tuberculosis, Soaked with Xe Atoms
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1RTE PDB ID: 1RTE
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 7.7 277 phosphate, pH 7.7, VAPOR DIFFUSION, HANGING DROP, temperature 277K
Crystal Properties Matthews coefficient Solvent content 2.15 42.28
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 44.321 α = 90 b = 61.959 β = 90 c = 90.747 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 IMAGE PLATE MARRESEARCH 2003-05-22 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 ROTATING ANODE RIGAKU RUH3R 1.54
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (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 2.43 50 94.9 0.098 6.9 4.3 9301 9301
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R-Sym I (Observed) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 2.43 2.56 94.9 0.277 4
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 ID: 1RTE 2.43 50 8854 8854 447 94.25 0.19816 0.19816 0.19435 0.2017 0.27692 0.2841 RANDOM 29.003
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] 0.71 0.22 -0.92
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_1_deg 5.105 r_angle_other_deg 3.636 r_scangle_it 1.741 r_angle_refined_deg 1.224 r_scbond_it 1.031 r_mcangle_it 0.741 r_mcbond_it 0.399 r_symmetry_vdw_refined 0.376 r_nbd_refined 0.33 r_nbd_other 0.301
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_1_deg 5.105 r_angle_other_deg 3.636 r_scangle_it 1.741 r_angle_refined_deg 1.224 r_scbond_it 1.031 r_mcangle_it 0.741 r_mcbond_it 0.399 r_symmetry_vdw_refined 0.376 r_nbd_refined 0.33 r_nbd_other 0.301 r_symmetry_vdw_other 0.292 r_xyhbond_nbd_refined 0.22 r_symmetry_hbond_refined 0.217 r_metal_ion_refined 0.14 r_nbtor_other 0.112 r_chiral_restr 0.062 r_bond_refined_d 0.009 r_gen_planes_other 0.005 r_gen_planes_refined 0.004 r_bond_other_d r_dihedral_angle_2_deg r_dihedral_angle_3_deg r_dihedral_angle_4_deg r_nbtor_refined r_xyhbond_nbd_other r_metal_ion_other r_symmetry_hbond_other r_mcbond_other r_rigid_bond_restr r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 1968 Nucleic Acid Atoms Solvent Atoms 107 Heterogen Atoms 104
Software Software Software Name Purpose REFMAC refinement MOSFLM data reduction CCP4 data scaling EPMR phasing