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CRYSTAL STRUCTURE OF a transcriptional regulator of the tetR family (SHEW_3567) FROM SHEWANELLA LOIHICA PV-4 AT 2.05 A RESOLUTION
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 7.5 277 40.0000% Ethylene-Glycol, 5.0000% PEG-3000, 0.1M HEPES pH 7.5, NANODROP, VAPOR DIFFUSION, SITTING DROP, temperature 277K
Crystal Properties Matthews coefficient Solvent content 2.42 49.14
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 77.83 α = 90 b = 45.836 β = 90 c = 68.694 γ = 90
Symmetry Space Group P 21 21 2
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 325 mm CCD Flat collimating mirror, toroid focusing mirror 2009-01-09 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON SSRL BEAMLINE BL9-2 SSRL BL9-2
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 2.05 29.67 100 0.096 0.096 10 4.8 16032 34.881
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R Merge I (Observed) R-Sym I (Observed) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 2.05 2.1 100 0.765 0.765 1.8 4.9 1176
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method 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 SAD THROUGHOUT 2.05 29.67 16004 799 99.95 0.19 0.187 0.19 0.248 0.2491 RANDOM 38.319
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] -0.01 -0.72 0.73
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 33.787 r_dihedral_angle_4_deg 18.422 r_dihedral_angle_3_deg 14.828 r_scangle_it 6.885 r_dihedral_angle_1_deg 6.88 r_scbond_it 5.407 r_mcangle_it 3.238 r_mcbond_it 2.373 r_angle_refined_deg 1.477 r_angle_other_deg 1.101
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 33.787 r_dihedral_angle_4_deg 18.422 r_dihedral_angle_3_deg 14.828 r_scangle_it 6.885 r_dihedral_angle_1_deg 6.88 r_scbond_it 5.407 r_mcangle_it 3.238 r_mcbond_it 2.373 r_angle_refined_deg 1.477 r_angle_other_deg 1.101 r_mcbond_other 0.467 r_symmetry_vdw_other 0.281 r_nbd_refined 0.238 r_nbd_other 0.18 r_nbtor_refined 0.175 r_xyhbond_nbd_refined 0.137 r_symmetry_hbond_refined 0.13 r_symmetry_vdw_refined 0.103 r_chiral_restr 0.09 r_nbtor_other 0.087 r_bond_refined_d 0.016 r_xyhbond_nbd_other 0.011 r_bond_other_d 0.009 r_gen_planes_refined 0.005 r_gen_planes_other 0.001
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 1595 Nucleic Acid Atoms Solvent Atoms 128 Heterogen Atoms 44
Software Software Software Name Purpose REFMAC refinement PHENIX refinement SHELX phasing MolProbity model building SCALA data scaling PDB_EXTRACT data extraction MOSFLM data reduction SHELXD phasing autoSHARP phasing