2OFZ

Ultrahigh Resolution Crystal Structure of RNA Binding Domain of SARS Nucleopcapsid (N Protein) at 1.1 Angstrom Resolution in Monoclinic Form.


X-RAY DIFFRACTION

Starting Model(s)

Initial Refinement Model(s)
TypeSourceAccession CodeDetails
experimental modelPDB 2BTLstructure of homolog from infectious bronchitis virus PDB:2BTL

Crystallization

Crystalization Experiments
IDMethodpHTemperatureDetails
1VAPOR DIFFUSION, SITTING DROP25% PEG 2000MME, 0.2 M sodium bromide, 0.1 M sodium acetate, bcip ADDITIVE, VAPOR DIFFUSION, SITTING DROP
Crystal Properties
Matthews coefficientSolvent content
2.0640.24

Crystal Data

Unit Cell
Length ( Å )Angle ( ˚ )
a = 36.571α = 90
b = 36.44β = 94.71
c = 47.737γ = 90
Symmetry
Space GroupP 1 21 1

Diffraction

Diffraction Experiment
ID #Crystal IDScattering TypeData Collection TemperatureDetectorDetector TypeDetailsCollection DateMonochromatorProtocol
11x-ray100CCDMARMOSAIC 325 mm CCDmirrors2005-05-23MSINGLE WAVELENGTH
Radiation Source
ID #SourceTypeWavelength ListSynchrotron SiteBeamline
1SYNCHROTRONSSRL BEAMLINE BL11-10.9793SSRLBL11-1

Data Collection

Overall
ID #Resolution (High)Resolution (Low)Percent Possible (Observed)R Merge I (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
11.1747.5797.40.0620.05922.193.84001611.19
Highest Resolution Shell
ID #Resolution (High)Resolution (Low)Percent Possible (All)Percent Possible (Observed)R Merge I (Observed)R-Sym I (Observed)Mean I Over Sigma (Observed)RedundancyNumber Unique Reflections (All)
1.171.299.190.4970.5262.253.22882

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-FreeR-Free Selection DetailsMean Isotropic B
X-RAY DIFFRACTIONMOLECULAR REPLACEMENTTHROUGHOUTstructure of homolog from infectious bronchitis virus PDB:2BTL1.1747.574001640016213199.780.16380.163890.162440.19132RANDOM11.191
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]
0.160.050.3-0.45
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg30.657
r_dihedral_angle_4_deg18.229
r_dihedral_angle_3_deg12.61
r_dihedral_angle_1_deg5.836
r_sphericity_free5.087
r_scangle_it3.208
r_sphericity_bonded2.95
r_scbond_it2.286
r_mcangle_it1.77
r_angle_refined_deg1.373
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg30.657
r_dihedral_angle_4_deg18.229
r_dihedral_angle_3_deg12.61
r_dihedral_angle_1_deg5.836
r_sphericity_free5.087
r_scangle_it3.208
r_sphericity_bonded2.95
r_scbond_it2.286
r_mcangle_it1.77
r_angle_refined_deg1.373
r_rigid_bond_restr1.271
r_mcbond_it1.166
r_symmetry_hbond_refined0.479
r_symmetry_vdw_refined0.324
r_nbtor_refined0.304
r_nbd_refined0.21
r_xyhbond_nbd_refined0.172
r_chiral_restr0.081
r_bond_refined_d0.01
r_gen_planes_refined0.007
Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen AtomsNumber
Protein Atoms1100
Nucleic Acid Atoms
Solvent Atoms185
Heterogen Atoms4

Software

Software
Software NamePurpose
REFMACrefinement
Blu-Icedata collection
HKL-2000data reduction
HKL-2000data scaling
PHASERphasing