3JR9

Crystal structure of Fis bound to 27 bp optimal binding sequence F2


X-RAY DIFFRACTION

Starting Model(s)

Initial Refinement Model(s)
TypeSourceAccession CodeDetails
experimental modelPDB 1ETO 

Crystallization

Crystalization Experiments
IDMethodpHTemperatureDetails
1VAPOR DIFFUSION, HANGING DROP8.52770.2 M Sodium citrate, 0.1 M TRIS-HCl pH 8.5, 36% PEG 400, vapor diffusion, hanging drop, temperature 277K
Crystal Properties
Matthews coefficientSolvent content
3.8868.33

Crystal Data

Unit Cell
Length ( Å )Angle ( ˚ )
a = 42.96α = 90
b = 91.69β = 90
c = 154.17γ = 90
Symmetry
Space GroupP 21 21 21

Diffraction

Diffraction Experiment
ID #Crystal IDScattering TypeData Collection TemperatureDetectorDetector TypeDetailsCollection DateMonochromatorProtocol
11x-ray100CCDADSC QUANTUM 3152008-02-25MSINGLE WAVELENGTH
Radiation Source
ID #SourceTypeWavelength ListSynchrotron SiteBeamline
1SYNCHROTRONAPS BEAMLINE 24-ID-C1.000APS24-ID-C

Data Collection

Overall
ID #Resolution (High)Resolution (Low)Percent Possible (Observed)R Merge I (Observed)Net I Over Average Sigma (I)RedundancyNumber Reflections (All)Number Reflections (Observed)Observed Criterion Sigma (F)Observed Criterion Sigma (I)B (Isotropic) From Wilson Plot
12.990990.1656.13.214353
Highest Resolution Shell
ID #Resolution (High)Resolution (Low)Percent Possible (All)Percent Possible (Observed)R Merge I (Observed)Mean I Over Sigma (Observed)RedundancyNumber Unique Reflections (All)
12.9399.40.6683.21393

Refinement

Statistics
Diffraction IDStructure Solution MethodCross Validation methodStarting modelResolution (High)Resolution (Low)Number Reflections (Observed)Number Reflections (R-Free)Percent Reflections (Observed)R-Factor (Observed)R-WorkR-FreeR-Free Selection DetailsMean Isotropic B
X-RAY DIFFRACTIONMOLECULAR REPLACEMENTTHROUGHOUT1ETO2.939.411262162989.350.2240.2220.263RANDOM40.851
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
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg38.526
r_dihedral_angle_3_deg16.598
r_dihedral_angle_4_deg14.99
r_dihedral_angle_1_deg4.666
MAIN-CHAIN ANGLE REFINED ATOMS (A''2)3.152
MAIN-CHAIN BOND REFINED ATOMS (A''2)2.659
SIDE-CHAIN ANGLE REFINED ATOMS (A''2)2.222
r_angle_refined_deg1.503
SIDE-CHAIN BOND REFINED ATOMS (A''2)1.428
r_angle_other_deg1.044
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg38.526
r_dihedral_angle_3_deg16.598
r_dihedral_angle_4_deg14.99
r_dihedral_angle_1_deg4.666
MAIN-CHAIN ANGLE REFINED ATOMS (A''2)3.152
MAIN-CHAIN BOND REFINED ATOMS (A''2)2.659
SIDE-CHAIN ANGLE REFINED ATOMS (A''2)2.222
r_angle_refined_deg1.503
SIDE-CHAIN BOND REFINED ATOMS (A''2)1.428
r_angle_other_deg1.044
MAIN-CHAIN BOND OTHER ATOMS (A''2)0.381
r_symmetry_vdw_refined0.218
r_symmetry_vdw_other0.211
r_nbd_other0.206
r_nbtor_refined0.201
r_nbd_refined0.192
r_symmetry_hbond_refined0.147
r_xyhbond_nbd_refined0.139
r_nbtor_other0.085
CHIRAL-CENTER RESTRAINTS (A''3)0.06
r_bond_refined_d0.009
r_gen_planes_refined0.004
r_bond_other_d0.003
r_gen_planes_other0.001
Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen AtomsNumber
Protein Atoms1502
Nucleic Acid Atoms1101
Solvent Atoms22
Heterogen Atoms

Software

Software
Software NamePurpose
DENZOdata reduction
SCALEPACKdata scaling
REFMACrefinement
PDB_EXTRACTdata extraction
PHASERphasing