2Z8U

Methanococcus jannaschii TBP


X-RAY DIFFRACTION

Crystallization

Crystalization Experiments
IDMethodpHTemperatureDetails
1VAPOR DIFFUSION, HANGING DROP4.6293PEG MME 2000, sodium acetate, ammonium sulfate, pH 4.60, VAPOR DIFFUSION, HANGING DROP, temperature 293K
Crystal Properties
Matthew coefficientSolvent content
2.1843.53

Crystal Data

Unit Cell
Length ( Å )Angle ( ˚ )
a = 53.242α = 90
b = 55.532β = 91.05
c = 123.434γ = 90
Symmetry
Space GroupP 1 21 1

Diffraction

Diffraction Experiment
ID #Crystal IDScattering TypeData Collection TemperatureDetectorDetector TypeDetailsCollection DateMonochromatorProtocol
11x-ray95CCDADSC QUANTUM 3152004-06-10MSINGLE WAVELENGTH
Radiation Source
ID #SourceTypeWavelength ListSynchrotron SiteBeamline
1SYNCHROTRONPHOTON FACTORY BEAMLINE BL-5A0.97910Photon FactoryBL-5A

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
11.96299.90.0399.25709457094
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)
11.9299.90.352.1

Refinement

Statistics
Diffraction IDStructure Solution MethodCross Validation methodStarting modelResolution (High)Resolution (Low)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 1MP91.9505418328921000.227340.225570.25911RANDOM39.653
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]
-0.54-0.131.64-1.11
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg41.592
r_dihedral_angle_4_deg23.135
r_dihedral_angle_3_deg16.133
r_dihedral_angle_1_deg5.371
r_scangle_it2.948
r_scbond_it1.826
r_angle_refined_deg1.29
r_mcangle_it1.153
r_mcbond_it0.729
r_nbtor_refined0.3
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg41.592
r_dihedral_angle_4_deg23.135
r_dihedral_angle_3_deg16.133
r_dihedral_angle_1_deg5.371
r_scangle_it2.948
r_scbond_it1.826
r_angle_refined_deg1.29
r_mcangle_it1.153
r_mcbond_it0.729
r_nbtor_refined0.3
r_symmetry_vdw_refined0.228
r_nbd_refined0.211
r_xyhbond_nbd_refined0.137
r_symmetry_hbond_refined0.135
r_chiral_restr0.08
r_bond_refined_d0.012
r_gen_planes_refined0.005
Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen AtomsNumber
Protein Atoms5323
Nucleic Acid Atoms
Solvent Atoms277
Heterogen Atoms

Software

Software
Software NamePurpose
REFMACrefinement
MOSFLMdata reduction
SCALAdata scaling
MOLREPphasing