X-RAY DIFFRACTION

Starting Model(s)

Initial Refinement Model(s)
TypeSourceAccession CodeDetails
experimental modelPDB 1DLE1dle and 1q0p were used for molecular replacement
experimental modelPDB 1Q0P1dle and 1q0p were used for molecular replacement

Crystallization

Crystalization Experiments
IDMethodpHTemperatureDetails
1VAPOR DIFFUSION, HANGING DROP6.529312% PEG 1500, 0.02 M Malic acid, 0.04 M MES, 0.04 M TRIS, pH 6.5, VAPOR DIFFUSION, HANGING DROP, temperature 293K
Crystal Properties
Matthews coefficientSolvent content
2.7955.98

Crystal Data

Unit Cell
Length ( Å )Angle ( ˚ )
a = 104.031α = 90
b = 104.031β = 90
c = 151.116γ = 120
Symmetry
Space GroupP 31 2 1

Diffraction

Diffraction Experiment
ID #Crystal IDScattering TypeData Collection TemperatureDetectorDetector TypeDetailsCollection DateMonochromatorProtocol
11x-ray100CCDADSC QUANTUM 3152006-02-25MSINGLE WAVELENGTH
Radiation Source
ID #SourceTypeWavelength ListSynchrotron SiteBeamline
1SYNCHROTRONESRF BEAMLINE ID14-40.9395ESRFID14-4

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
12.36099.80.1084.142556
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)
12.32.421000.5612.64.1

Refinement

Statistics
Diffraction IDStructure Solution MethodCross Validation methodStarting modelResolution (High)Resolution (Low)Number Reflections (All)Number Reflections (Observed)Number Reflections (R-Free)Percent Reflections (Observed)R-Factor (All)R-WorkR-FreeR-Free Selection DetailsMean Isotropic B
X-RAY DIFFRACTIONMOLECULAR REPLACEMENTTHROUGHOUT1dle and 1q0p were used for molecular replacement2.3604255640409214799.790.197480.195140.24051RANDOM33.681
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]
1.090.551.09-1.64
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg34.642
r_dihedral_angle_3_deg15.818
r_dihedral_angle_4_deg15.161
r_dihedral_angle_1_deg6.322
r_scangle_it2.535
r_scbond_it1.579
r_angle_refined_deg1.297
r_mcangle_it1.042
r_mcbond_it0.612
r_nbtor_refined0.303
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg34.642
r_dihedral_angle_3_deg15.818
r_dihedral_angle_4_deg15.161
r_dihedral_angle_1_deg6.322
r_scangle_it2.535
r_scbond_it1.579
r_angle_refined_deg1.297
r_mcangle_it1.042
r_mcbond_it0.612
r_nbtor_refined0.303
r_nbd_refined0.194
r_symmetry_vdw_refined0.181
r_xyhbond_nbd_refined0.151
r_symmetry_hbond_refined0.121
r_chiral_restr0.087
r_bond_refined_d0.01
r_gen_planes_refined0.004
Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen AtomsNumber
Protein Atoms5606
Nucleic Acid Atoms
Solvent Atoms295
Heterogen Atoms217

Software

Software
Software NamePurpose
REFMACrefinement
DNAdata collection
MOSFLMdata reduction
CCP4data scaling
PHASERphasing