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Crystal structure of Fis bound to 27 bp non consensus sequence DNA F23
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 68.98
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 43.222 α = 90 b = 92.635 β = 90 c = 154.863 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 99.7 0.144 8.2 6.4 11811
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 97.6 0.605 5.1 1108
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-Free (Depositor) R-Free (DCC) R-Free Selection Details Mean Isotropic B X-RAY DIFFRACTION MOLECULAR REPLACEMENT THROUGHOUT 3IV5 3.11 79.56 11756 559 99.57 0.232 0.23 0.271 0.2863 RANDOM 85.056
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 42.141 r_dihedral_angle_3_deg 19.085 r_dihedral_angle_4_deg 15.777 r_dihedral_angle_1_deg 5.901 SIDE-CHAIN ANGLE REFINED ATOMS (A''2) 1.918 r_angle_refined_deg 1.842 SIDE-CHAIN BOND REFINED ATOMS (A''2) 1.271 r_angle_other_deg 1.096 MAIN-CHAIN ANGLE REFINED ATOMS (A''2) 0.871 MAIN-CHAIN BOND REFINED ATOMS (A''2) 0.732
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 42.141 r_dihedral_angle_3_deg 19.085 r_dihedral_angle_4_deg 15.777 r_dihedral_angle_1_deg 5.901 SIDE-CHAIN ANGLE REFINED ATOMS (A''2) 1.918 r_angle_refined_deg 1.842 SIDE-CHAIN BOND REFINED ATOMS (A''2) 1.271 r_angle_other_deg 1.096 MAIN-CHAIN ANGLE REFINED ATOMS (A''2) 0.871 MAIN-CHAIN BOND REFINED ATOMS (A''2) 0.732 r_nbd_refined 0.227 r_nbtor_refined 0.217 r_nbd_other 0.206 r_symmetry_vdw_other 0.201 r_symmetry_hbond_refined 0.184 r_symmetry_vdw_refined 0.116 r_xyhbond_nbd_refined 0.113 MAIN-CHAIN BOND OTHER ATOMS (A''2) 0.109 r_nbtor_other 0.093 CHIRAL-CENTER RESTRAINTS (A''3) 0.072 r_bond_refined_d 0.015 r_bond_other_d 0.005 r_gen_planes_refined 0.005 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