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Crystal structure of spin-labeled BtuB V10R1 in the apo state
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1NQE PDB ENTRY 1NQE, residue 10 deleted
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 6.6 290 2.5% PEG3350,20 mM Bis Tris, 150 mM Magnesium acetate, 10 mM C8E4, pH 6.6, VAPOR DIFFUSION, HANGING DROP, temperature 290K
Crystal Properties Matthews coefficient Solvent content 3.25 62.11
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 81.29 α = 90 b = 81.29 β = 90 c = 226.562 γ = 120
Symmetry Space Group P 31 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 90 CCD MARMOSAIC 300 mm CCD 2009-11-30 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON APS BEAMLINE 22-ID 1.00 APS 22-ID
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 2.4 50 92.9 0.091 0.091 14.2 9.6 32472 32472 6.9 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 2.4 2.49 38.6 0.383 4.6 1314
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 1NQE, residue 10 deleted 2.44 44.13 30769 32415 1646 97.59 0.264 0.221 0.219 0.218 0.248 0.2447 RANDOM 30.191
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] -0.04 -0.02 -0.04 0.07
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 33.691 r_dihedral_angle_4_deg 19.883 r_dihedral_angle_3_deg 13.66 r_dihedral_angle_1_deg 8.813 r_scangle_it 4.978 r_scbond_it 3.048 r_mcangle_it 1.986 r_angle_refined_deg 1.839 r_mcbond_it 1.052 r_angle_other_deg 0.954
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 33.691 r_dihedral_angle_4_deg 19.883 r_dihedral_angle_3_deg 13.66 r_dihedral_angle_1_deg 8.813 r_scangle_it 4.978 r_scbond_it 3.048 r_mcangle_it 1.986 r_angle_refined_deg 1.839 r_mcbond_it 1.052 r_angle_other_deg 0.954 r_mcbond_other 0.221 r_chiral_restr 0.112 r_bond_refined_d 0.021 r_gen_planes_refined 0.009 r_bond_other_d 0.004 r_gen_planes_other 0.001
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 4329 Nucleic Acid Atoms Solvent Atoms 113 Heterogen Atoms 163
Software Software Software Name Purpose DENZO data reduction SCALEPACK data scaling PHASER phasing REFMAC refinement PDB_EXTRACT data extraction MAR345 data collection