1KGI

Rat transthyretin (also called prealbumin) complex with 3,3',5,5'-tetraiodothyroacetic acid (t4ac)


X-RAY DIFFRACTION

Starting Model(s)

Initial Refinement Model(s)
TypeSourceAccession CodeDetails
experimental modelPDB 1GKETETRAMER OF RAT TTR, PDB ENTRY 1GKE

Crystallization

Crystalization Experiments
IDMethodpHTemperatureDetails
1VAPOR DIFFUSION, HANGING DROP5293ammonium sulphate, acetate buffer,, pH 5.00, VAPOR DIFFUSION, HANGING DROP, temperature 293K
Crystal Properties
Matthews coefficientSolvent content
2.3846.4

Crystal Data

Unit Cell
Length ( Å )Angle ( ˚ )
a = 81.51α = 90
b = 81.51β = 90
c = 160.238γ = 90
Symmetry
Space GroupP 43 21 2

Diffraction

Diffraction Experiment
ID #Crystal IDScattering TypeData Collection TemperatureDetectorDetector TypeDetailsCollection DateMonochromatorProtocol
11x-ray100IMAGE PLATEHAMLIN/UCSDCOLLIMATOR1997-02-01MSINGLE WAVELENGTH
Radiation Source
ID #SourceTypeWavelength ListSynchrotron SiteBeamline
1SYNCHROTRONCHESS0.9109CHESS

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
11.846.78770.20.04824.74.31357103571020.6
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)
1.81.84280.3512.35.15884

Refinement

Statistics
Diffraction IDStructure Solution MethodCross Validation methodStarting modelResolution (High)Resolution (Low)Cut-off Sigma (F)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 DIFFRACTIONFOURIER SYNTHESISTHROUGHOUTTETRAMER OF RAT TTR, PDB ENTRY 1GKE1.8833571032345262064.40.210.2040.2070.24RANDOM33.5
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]
2.472.47-4.95
RMS Deviations
KeyRefinement Restraint Deviation
c_dihedral_angle_d25.5
c_scbond_it10.98
c_scangle_it10.4
c_mcangle_it3.74
c_mcbond_it2.3
c_angle_deg1.198
c_improper_angle_d1.05
c_bond_d0.006
Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen AtomsNumber
Protein Atoms3737
Nucleic Acid Atoms
Solvent Atoms281
Heterogen Atoms88

Software

Software
Software NamePurpose
HAMLIN/UCSDdata collection
HAMLIN/UCSDdata reduction
CNSrefinement
UCSD-systemdata reduction
UCSD-systemdata scaling
CNSphasing