X-RAY DIFFRACTION

Starting Model(s)

Initial Refinement Model(s)
TypeSourceAccession CodeDetails
in silico modelOtherA-form RNA

Crystallization

Crystalization Experiments
IDMethodpHTemperatureDetails
1VAPOR DIFFUSION, HANGING DROP6.5293(NH4)2SO4, SODIUM CACODYLATE, MGCL2, ROP PROTEIN, pH 6.5, VAPOR DIFFUSION, HANGING DROP, temperature 293K
Crystal Properties
Matthews coefficientSolvent content
2.354

Crystal Data

Unit Cell
Length ( Å )Angle ( ˚ )
a = 43.682α = 90
b = 43.682β = 90
c = 447.021γ = 120
Symmetry
Space GroupH 3 2

Diffraction

Diffraction Experiment
ID #Crystal IDScattering TypeData Collection TemperatureDetectorDetector TypeDetailsCollection DateMonochromatorProtocol
11x-ray100CCDADSC QUANTUM 41997-11-15MSINGLE WAVELENGTH
21x-ray100IMAGE PLATERIGAKU RAXIS1998-05-30MSINGLE WAVELENGTH
Radiation Source
ID #SourceTypeWavelength ListSynchrotron SiteBeamline
1SYNCHROTRONCHESS BEAMLINE F1CHESSF1
2ROTATING ANODERIGAKU RU300

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
1,21.554091.50.05226.93.62489822779-3-327.2
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)
1.551.6194.80.4522.72.7

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-Factor (Observed)R-WorkR-FreeMean Isotropic B
X-RAY DIFFRACTIONMOLECULAR REPLACEMENTFREE RA-RNA1.55402277918563114491.50.15330.15330.14980.2144
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]
Coordinate Error
Structure Solution MethodRefinement High ResolutionRefinement Low Resolution
5611383
RMS Deviations
KeyRefinement Restraint Deviation
s_approx_iso_adps0.077
s_similar_adp_cmpnt0.049
s_angle_d0.018
s_from_restr_planes0.015
s_anti_bump_dis_restr0.009
s_bond_d0.007
s_rigid_bond_adp_cmpnt0.003
s_similar_dist
s_zero_chiral_vol
s_non_zero_chiral_vol
Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen AtomsNumber
Protein Atoms
Nucleic Acid Atoms1767
Solvent Atoms251
Heterogen Atoms7

Software

Software
Software NamePurpose
SHELXL-97refinement
CNSrefinement
SOLVEphasing
DENZOdata reduction
SCALEPACKdata scaling
CNSphasing