3FIG

Crystal Structure of Leucine-bound LeuA from Mycobacterium tuberculosis


X-RAY DIFFRACTION

Starting Model(s)

Initial Refinement Model(s)
TypeSourceAccession CodeDetails
experimental modelPDB 1SR9 

Crystallization

Crystalization Experiments
IDMethodpHTemperatureDetails
1VAPOR DIFFUSION, SITTING DROP6291Sodium Citrate, MPEG 2000, pH 6.0, Vapor diffusion, sitting drop, temperature 291K
Crystal Properties
Matthews coefficientSolvent content
2.0339.27

Crystal Data

Unit Cell
Length ( Å )Angle ( ˚ )
a = 54.207α = 90
b = 154.258β = 97.99
c = 68.669γ = 90
Symmetry
Space GroupP 1 21 1

Diffraction

Diffraction Experiment
ID #Crystal IDScattering TypeData Collection TemperatureDetectorDetector TypeDetailsCollection DateMonochromatorProtocol
11x-ray113IMAGE PLATEMAR scanner 345 mm plateMSINGLE WAVELENGTH
Radiation Source
ID #SourceTypeWavelength ListSynchrotron SiteBeamline
1ROTATING ANODERIGAKU RUH3R1.5418

Data Collection

Overall
ID #Resolution (High)Resolution (Low)Percent Possible (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
12.33049393

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 REPLACEMENTTHROUGHOUT1SR92.327.6649360250999.780.170.1660.244RANDOM27.572
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]
0.460.77-0.70.45
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg34.374
r_dihedral_angle_4_deg17.988
r_dihedral_angle_3_deg16.199
r_dihedral_angle_1_deg7.293
r_scangle_it4.532
r_scbond_it3.084
r_angle_refined_deg2.029
r_mcangle_it1.799
r_mcbond_it1.113
r_nbtor_refined0.307
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg34.374
r_dihedral_angle_4_deg17.988
r_dihedral_angle_3_deg16.199
r_dihedral_angle_1_deg7.293
r_scangle_it4.532
r_scbond_it3.084
r_angle_refined_deg2.029
r_mcangle_it1.799
r_mcbond_it1.113
r_nbtor_refined0.307
r_symmetry_vdw_refined0.269
r_symmetry_hbond_refined0.248
r_nbd_refined0.213
r_xyhbond_nbd_refined0.154
r_chiral_restr0.138
r_bond_refined_d0.024
r_gen_planes_refined0.009
Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen AtomsNumber
Protein Atoms8728
Nucleic Acid Atoms
Solvent Atoms366
Heterogen Atoms31

Software

Software
Software NamePurpose
REFMACrefinement
PDB_EXTRACTdata extraction