X-RAY DIFFRACTION

Starting Model(s)

Initial Refinement Model(s)
TypeSourceAccession CodeDetails
experimental modelPDB 1AB4PDB ID 1AB4 (E. coli GyrA NTD), related entry 1ZVT (E. coli ParC CTD)
experimental modelPDB 1ZVTPDB ID 1AB4 (E. coli GyrA NTD), related entry 1ZVT (E. coli ParC CTD)

Crystallization

Crystalization Experiments
IDMethodpHTemperatureDetails
1VAPOR DIFFUSION, HANGING DROP7.5293HEPES, NaCl, glycerol, PEG-6000, 1,3-butanediol, pH 7.5, VAPOR DIFFUSION, HANGING DROP, temperature 293K
Crystal Properties
Matthews coefficientSolvent content
3.4164

Crystal Data

Unit Cell
Length ( Å )Angle ( ˚ )
a = 257.99α = 90
b = 62.141β = 90
c = 63.998γ = 90
Symmetry
Space GroupP 21 21 2

Diffraction

Diffraction Experiment
ID #Crystal IDScattering TypeData Collection TemperatureDetectorDetector TypeDetailsCollection DateMonochromatorProtocol
11x-ray100CCDADSC QUANTUM 2102004-08-26MSINGLE WAVELENGTH
Radiation Source
ID #SourceTypeWavelength ListSynchrotron SiteBeamline
1SYNCHROTRONALS BEAMLINE 8.3.11.1157ALS8.3.1

Data Collection

Overall
ID #Resolution (High)Resolution (Low)Percent Possible (Observed)R Sym 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
132089.70.1349.53.419320193201137.4
Highest Resolution Shell
ID #Resolution (High)Resolution (Low)Percent Possible (All)Percent Possible (Observed)R-Sym I (Observed)Mean I Over Sigma (Observed)RedundancyNumber Unique Reflections (All)
133.1189.10.3872.53.31890

Refinement

Statistics
Diffraction IDStructure Solution MethodCross Validation methodStarting modelResolution (High)Resolution (Low)Cut-off Sigma (F)Number Reflections (All)Number Reflections (Observed)Number Reflections (R-Free)Percent Reflections (Observed)R-Factor (All)R-Factor (Observed)R-WorkR-FreeR-Free Selection DetailsMean Isotropic B
X-RAY DIFFRACTIONMOLECULAR REPLACEMENTTHROUGHOUTPDB ID 1AB4 (E. coli GyrA NTD), related entry 1ZVT (E. coli ParC CTD)3201181671816799289.610.243230.243230.240360.29583RANDOM40.027
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]
0.992.51-3.49
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg37.83
r_dihedral_angle_4_deg19.388
r_dihedral_angle_3_deg17.714
r_dihedral_angle_1_deg4.978
r_scangle_it1.268
r_angle_refined_deg1.087
r_scbond_it0.719
r_mcangle_it0.68
r_mcbond_it0.386
r_nbtor_refined0.303
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg37.83
r_dihedral_angle_4_deg19.388
r_dihedral_angle_3_deg17.714
r_dihedral_angle_1_deg4.978
r_scangle_it1.268
r_angle_refined_deg1.087
r_scbond_it0.719
r_mcangle_it0.68
r_mcbond_it0.386
r_nbtor_refined0.303
r_symmetry_vdw_refined0.224
r_nbd_refined0.212
r_symmetry_hbond_refined0.151
r_xyhbond_nbd_refined0.145
r_chiral_restr0.069
r_bond_refined_d0.007
r_gen_planes_refined0.003
r_bond_other_d
r_angle_other_deg
r_gen_planes_other
r_nbd_other
r_nbtor_other
r_xyhbond_nbd_other
r_metal_ion_refined
r_metal_ion_other
r_symmetry_vdw_other
r_symmetry_hbond_other
r_symmetry_metal_ion_refined
r_symmetry_metal_ion_other
r_mcbond_other
r_rigid_bond_restr
r_sphericity_free
r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen AtomsNumber
Protein Atoms5367
Nucleic Acid Atoms
Solvent Atoms35
Heterogen Atoms

Software

Software
Software NamePurpose
REFMACrefinement
HKL-2000data reduction
SCALEPACKdata scaling
PHASERphasing