1ZIW | pdb_00001ziw

Human Toll-like Receptor 3 extracellular domain structure

X-RAY DIFFRACTION

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Crystallization

Crystalization Experiments
ID	Method	pH	Temperature	Details
1	VAPOR DIFFUSION, SITTING DROP	7	295	PEG2000, Ammonium Sulfate, pH 7, VAPOR DIFFUSION, SITTING DROP, temperature 295K

Crystal Properties
Matthews coefficient	Solvent content
3.2	65

Crystal Data

Unit Cell
Length ( Å )	Angle ( ˚ )
a = 138.497	α = 90
b = 155.121	β = 90
c = 119.669	γ = 90

Symmetry
Space Group	C 2 2 21

Diffraction

Diffraction Experiment
ID #	Crystal ID	Scattering Type	Data Collection Temperature	Detector	Detector Type	Details	Collection Date	Monochromator	Protocol
1	1	x-ray	100	CCD	ADSC QUANTUM 4		2005-03-15	M	SINGLE WAVELENGTH
2	1	x-ray		CCD	ADSC QUANTUM 4		2005-03-13	M	MAD
1,2	1

Radiation Source
ID #	Source	Type	Wavelength List	Synchrotron Site	Beamline
1	SYNCHROTRON	SSRL BEAMLINE BL11-1	1.07812	SSRL	BL11-1
2	SYNCHROTRON	SSRL BEAMLINE BL11-1	1.1401,1.1412,1.1271	SSRL	BL11-1

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
1,2	2.1	50	99.7	0.062	20		76650	76420

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)
1,2	2.1	2.17	100		0.565	2.2

Refinement

Statistics
Diffraction ID	Structure Solution Method	Cross Validation method	Resolution (High)	Resolution (Low)	Number Reflections (All)	Number Reflections (Observed)	Number Reflections (R-Free)	Percent Reflections (Observed)	R-Factor (All)	R-Factor (Observed)	R-Work (Depositor)	R-Work (DCC)	R-Free (Depositor)	R-Free (DCC)	R-Free Selection Details	Mean Isotropic B
X-RAY DIFFRACTION	MAD	THROUGHOUT	2.1	20	71071	71071	3795	99.7	0.2103	0.2103	0.20825	0.2067	0.2479	0.2467	RANDOM	43.444

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]
-1.48			0.06		1.41

RMS Deviations
Key	Refinement Restraint Deviation
r_dihedral_angle_2_deg	40.822
r_dihedral_angle_4_deg	16.895
r_dihedral_angle_3_deg	14.606
r_scangle_it	9.043
r_dihedral_angle_1_deg	6.844
r_scbond_it	6.495
r_mcangle_it	3.381
r_mcbond_it	2.175
r_angle_refined_deg	1.641
r_symmetry_hbond_refined	0.508
r_symmetry_vdw_refined	0.443
r_nbtor_refined	0.322
r_nbd_refined	0.232
r_xyhbond_nbd_refined	0.217
r_chiral_restr	0.106
r_bond_refined_d	0.016
r_gen_planes_refined	0.006

Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms	Number
Protein Atoms	5052
Nucleic Acid Atoms
Solvent Atoms	362
Heterogen Atoms	214

Software

Software
Software Name	Purpose
REFMAC	refinement
HKL-2000	data reduction
SCALEPACK	data scaling
SOLVE	phasing