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Structure of the E. coli protein MqsA (YgiT/b3021)
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 3GA8 PDB entries 3GA8 and 3FMY experimental model PDB 3FMY PDB entries 3GA8 and 3FMY
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 5.5 277 0.1M Bis-Tris, 0.2M magnesium chloride hexahydrate, 25% PEG 3350, pH 5.5, VAPOR DIFFUSION, SITTING DROP, temperature 277K
Crystal Properties Matthews coefficient Solvent content 2.33 47.19
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 62.054 α = 90 b = 30.965 β = 106.6 c = 75.542 γ = 90
Symmetry Space Group P 1 21 1
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 ADSC QUANTUM 270 toroidal focusing mirror 2009-03-08 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON NSLS BEAMLINE X6A 1.00 NSLS X6A
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 2.15 50 99.4 0.074 12.9 3.2 15447 15349 25.2
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) 1 2.15 2.19 99.7 0.271 4.85 3.1 759
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 entries 3GA8 and 3FMY 2.15 50 14577 14577 764 99.01 0.18475 0.18475 0.18201 0.1848 0.23339 0.2298 RANDOM 21.319
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] 0.96 -0.17 0.33 -1.38
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 28.694 r_dihedral_angle_3_deg 14.009 r_dihedral_angle_4_deg 13.083 r_scangle_it 5.795 r_dihedral_angle_1_deg 5.227 r_scbond_it 4.2 r_mcangle_it 2.615 r_mcbond_it 1.683 r_angle_refined_deg 1.225 r_angle_other_deg 0.88
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 28.694 r_dihedral_angle_3_deg 14.009 r_dihedral_angle_4_deg 13.083 r_scangle_it 5.795 r_dihedral_angle_1_deg 5.227 r_scbond_it 4.2 r_mcangle_it 2.615 r_mcbond_it 1.683 r_angle_refined_deg 1.225 r_angle_other_deg 0.88 r_mcbond_other 0.36 r_symmetry_vdw_other 0.237 r_nbd_refined 0.205 r_nbd_other 0.188 r_xyhbond_nbd_refined 0.173 r_nbtor_refined 0.172 r_symmetry_hbond_refined 0.16 r_symmetry_vdw_refined 0.14 r_nbtor_other 0.087 r_chiral_restr 0.074 r_bond_refined_d 0.011 r_gen_planes_refined 0.004 r_bond_other_d 0.002 r_gen_planes_other 0.001
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 2052 Nucleic Acid Atoms Solvent Atoms 153 Heterogen Atoms 8
Software Software Software Name Purpose HKL-2000 data collection PHASER phasing REFMAC refinement HKL-2000 data reduction HKL-2000 data scaling