1KGI | pdb_00001kgi

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

X-RAY DIFFRACTION

---

Starting Model(s)

Initial Refinement Model(s)
Type	Source	Accession Code	Details
experimental model	PDB	1GKE	TETRAMER OF RAT TTR, PDB ENTRY 1GKE

Crystallization

Crystalization Experiments
ID	Method	pH	Temperature	Details
1	VAPOR DIFFUSION, HANGING DROP	5	293	ammonium sulphate, acetate buffer,, pH 5.00, VAPOR DIFFUSION, HANGING DROP, temperature 293K

Crystal Properties
Matthews coefficient	Solvent content
2.38	46.4

Crystal Data

Unit Cell
Length ( Å )	Angle ( ˚ )
a = 81.51	α = 90
b = 81.51	β = 90
c = 160.238	γ = 90

Symmetry
Space Group	P 43 21 2

Diffraction

Diffraction Experiment
ID #	Crystal ID	Scattering Type	Data Collection Temperature	Detector	Detector Type	Details	Collection Date	Monochromator	Protocol
1	1	x-ray	100	IMAGE PLATE	HAMLIN/UCSD	COLLIMATOR	1997-02-01	M	SINGLE WAVELENGTH

Radiation Source
ID #	Source	Type	Wavelength List	Synchrotron Site	Beamline
1	SYNCHROTRON	CHESS	0.9109	CHESS

Data Collection

Overall
ID #	Resolution (High)	Resolution (Low)	Percent Possible (Observed)	R Merge I (Observed)	Net I Over Average Sigma (I)	Redundancy	Number Reflections (All)	Number Reflections (Observed)	Observed Criterion Sigma (F)	Observed Criterion Sigma (I)	B (Isotropic) From Wilson Plot
1	1.8	46.787	70.2	0.048	24.7	4.31	35710	35710			20.6

Highest Resolution Shell
ID #	Resolution (High)	Resolution (Low)	Percent Possible (All)	Percent Possible (Observed)	R Merge I (Observed)	Mean I Over Sigma (Observed)	Redundancy	Number Unique Reflections (All)
	1.8	1.84	28		0.351	2.3	5.15	884

Refinement

Statistics
Diffraction ID	Structure Solution Method	Cross Validation method	Starting model	Resolution (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-Work (Depositor)	R-Free (Depositor)	R-Free Selection Details	Mean Isotropic B
X-RAY DIFFRACTION	FOURIER SYNTHESIS	THROUGHOUT	TETRAMER OF RAT TTR, PDB ENTRY 1GKE	1.8	8	3	35710	32345	2620	64.4	0.21	0.204	0.207	0.24	RANDOM	33.5

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]
2.47			2.47		-4.95

RMS Deviations
Key	Refinement Restraint Deviation
c_dihedral_angle_d	25.5
c_scbond_it	10.98
c_scangle_it	10.4
c_mcangle_it	3.74
c_mcbond_it	2.3
c_angle_deg	1.198
c_improper_angle_d	1.05
c_bond_d	0.006

Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms	Number
Protein Atoms	3737
Nucleic Acid Atoms
Solvent Atoms	281
Heterogen Atoms	88

Software

Software
Software Name	Purpose
HAMLIN/UCSD	data collection
HAMLIN/UCSD	data reduction
CNS	refinement
UCSD-system	data reduction
UCSD-system	data scaling
CNS	phasing