2V6O

Structure of Schistosoma mansoni Thioredoxin-Glutathione Reductase (SmTGR)


X-RAY DIFFRACTION

Starting Model(s)

Initial Refinement Model(s)
TypeSourceAccession CodeDetails
experimental modelPDB 1H6VPDB ENTRY 1H6V

Crystallization

Crystalization Experiments
IDMethodpHTemperatureDetails
17.222% PEG 3350, 0.1M HEPES PH 7.2, 0.2M NANO3, 5MM DTT
Crystal Properties
Matthews coefficientSolvent content
3.362.6

Crystal Data

Unit Cell
Length ( Å )Angle ( ˚ )
a = 142.324α = 90
b = 102.533β = 112.63
c = 59.027γ = 90
Symmetry
Space GroupC 1 2 1

Diffraction

Diffraction Experiment
ID #Crystal IDScattering TypeData Collection TemperatureDetectorDetector TypeDetailsCollection DateMonochromatorProtocol
11x-ray100CCDMARRESEARCH2007-03-14MSINGLE WAVELENGTH
Radiation Source
ID #SourceTypeWavelength ListSynchrotron SiteBeamline
1SYNCHROTRONBESSY BEAMLINE 14.1BESSY14.1

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
12.22097.10.129.33.239579227.5
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)
12.22.2695.40.345.23.4

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 1H6V2.219.9236440191697.10.1910.1880.252RANDOM25.86
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]
0.120.140.2-0.22
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg33.709
r_dihedral_angle_4_deg17.648
r_dihedral_angle_1_deg14.987
r_dihedral_angle_3_deg14.607
r_scangle_it4.073
r_scbond_it2.977
r_angle_refined_deg2.054
r_mcangle_it1.813
r_mcbond_it1.238
r_nbtor_refined0.309
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg33.709
r_dihedral_angle_4_deg17.648
r_dihedral_angle_1_deg14.987
r_dihedral_angle_3_deg14.607
r_scangle_it4.073
r_scbond_it2.977
r_angle_refined_deg2.054
r_mcangle_it1.813
r_mcbond_it1.238
r_nbtor_refined0.309
r_xyhbond_nbd_refined0.264
r_nbd_refined0.231
r_symmetry_vdw_refined0.2
r_chiral_restr0.173
r_symmetry_hbond_refined0.117
r_bond_refined_d0.024
r_gen_planes_refined0.01
r_bond_other_d
r_angle_other_deg
r_gen_planes_other
r_nbd_other
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
r_mcangle_other
r_scbond_other
r_scangle_other
r_long_range_B_refined
r_long_range_B_other
r_rigid_bond_restr
r_sphericity_free
r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen AtomsNumber
Protein Atoms4492
Nucleic Acid Atoms
Solvent Atoms312
Heterogen Atoms109

Software

Software
Software NamePurpose
REFMACrefinement
DENZOdata reduction
SCALEPACKdata scaling
PHASERphasing