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Crystal structure of Fis bound to 27 bp non consensus sequence DNA F18
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 3IV5
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 8.5 277 0.3 M Sodium citrate, 0.1 M TRIS-HCl pH 8.5, 36% PEG 400, vapor diffusion, hanging drop, temperature 277K
Crystal Properties Matthews coefficient Solvent content 3.97 69.04
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 43.15 α = 90 b = 93.16 β = 90 c = 154.56 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 CCD ADSC QUANTUM 315 2007-04-27 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON ALS BEAMLINE 8.2.2 1.000 ALS 8.2.2
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 3.1 90 99.2 0.142 7.3 9 11836
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 3.1 3.21 94.5 0.546 6.2 1083
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 3IV5 3.11 79.81 10739 515 91.02 0.24 0.237 0.2386 0.289 0.2905 RANDOM 65.067
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]
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 38.476 r_dihedral_angle_3_deg 16.199 r_dihedral_angle_4_deg 14.359 r_dihedral_angle_1_deg 4.899 MAIN-CHAIN ANGLE REFINED ATOMS (A''2) 1.628 MAIN-CHAIN BOND REFINED ATOMS (A''2) 1.423 r_angle_refined_deg 1.377 SIDE-CHAIN ANGLE REFINED ATOMS (A''2) 1.124 r_angle_other_deg 0.947 SIDE-CHAIN BOND REFINED ATOMS (A''2) 0.672
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 38.476 r_dihedral_angle_3_deg 16.199 r_dihedral_angle_4_deg 14.359 r_dihedral_angle_1_deg 4.899 MAIN-CHAIN ANGLE REFINED ATOMS (A''2) 1.628 MAIN-CHAIN BOND REFINED ATOMS (A''2) 1.423 r_angle_refined_deg 1.377 SIDE-CHAIN ANGLE REFINED ATOMS (A''2) 1.124 r_angle_other_deg 0.947 SIDE-CHAIN BOND REFINED ATOMS (A''2) 0.672 r_symmetry_hbond_refined 0.272 r_nbtor_refined 0.198 r_nbd_refined 0.186 r_nbd_other 0.184 MAIN-CHAIN BOND OTHER ATOMS (A''2) 0.174 r_symmetry_vdw_other 0.165 r_symmetry_vdw_refined 0.156 r_xyhbond_nbd_refined 0.144 CHIRAL-CENTER RESTRAINTS (A''3) 0.1 r_nbtor_other 0.08 r_bond_refined_d 0.006 r_bond_other_d 0.002 r_gen_planes_refined 0.002 r_gen_planes_other 0.001
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 1505 Nucleic Acid Atoms 1101 Solvent Atoms Heterogen Atoms
Software Software Software Name Purpose DENZO data reduction SCALEPACK data scaling REFMAC refinement PDB_EXTRACT data extraction PHASER phasing