2ASB

Structure of a Mycobacterium tuberculosis NusA-RNA complex


X-RAY DIFFRACTION

Starting Model(s)

Initial Refinement Model(s)
TypeSourceAccession CodeDetails
experimental modelPDB 1K0RPDB entry 1k0r

Crystallization

Crystalization Experiments
IDMethodpHTemperatureDetails
1VAPOR DIFFUSION, SITTING DROP8.5291PEG 4000, Lithium sulphate, Tris, pH 8.5, VAPOR DIFFUSION, SITTING DROP, temperature 291K
Crystal Properties
Matthews coefficientSolvent content
2.448.3

Crystal Data

Unit Cell
Length ( Å )Angle ( ˚ )
a = 71.416α = 90
b = 71.416β = 90
c = 115.219γ = 90
Symmetry
Space GroupP 41 2 2

Diffraction

Diffraction Experiment
ID #Crystal IDScattering TypeData Collection TemperatureDetectorDetector TypeDetailsCollection DateMonochromatorProtocol
11x-rayCCDADSC QUANTUM 42004-09-24MSINGLE WAVELENGTH
Radiation Source
ID #SourceTypeWavelength ListSynchrotron SiteBeamline
1SYNCHROTRONSRS BEAMLINE PX14.20.9795SRSPX14.2

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
11.53097.10.0420.05428.44.74850547092-3
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)
1.51.5586.30.540.622.13.5

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 (Observed)R-WorkR-FreeR-Free Selection DetailsMean Isotropic B
X-RAY DIFFRACTIONMOLECULAR REPLACEMENTTHROUGHOUTPDB entry 1k0r1.5304607844696239097.150.18960.18790.22246RANDOM24.516
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]
0.050.05-0.11
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_3_deg15.699
r_dihedral_angle_1_deg4.713
r_scangle_it4.178
r_sphericity_free2.881
r_scbond_it2.756
r_sphericity_bonded2.608
r_mcangle_it2.253
r_angle_refined_deg1.608
r_rigid_bond_restr1.443
r_mcbond_it1.315
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_3_deg15.699
r_dihedral_angle_1_deg4.713
r_scangle_it4.178
r_sphericity_free2.881
r_scbond_it2.756
r_sphericity_bonded2.608
r_mcangle_it2.253
r_angle_refined_deg1.608
r_rigid_bond_restr1.443
r_mcbond_it1.315
r_symmetry_hbond_refined0.345
r_symmetry_vdw_refined0.339
r_nbd_refined0.26
r_xyhbond_nbd_refined0.212
r_chiral_restr0.104
r_bond_refined_d0.013
r_gen_planes_refined0.007
r_bond_other_d
r_angle_other_deg
r_dihedral_angle_2_deg
r_dihedral_angle_4_deg
r_gen_planes_other
r_nbd_other
r_nbtor_refined
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
Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen AtomsNumber
Protein Atoms1690
Nucleic Acid Atoms233
Solvent Atoms260
Heterogen Atoms

Software

Software
Software NamePurpose
REFMACrefinement
DENZOdata reduction
SCALEPACKdata scaling
AMoREphasing