2EHB | pdb_00002ehb

The structure of the C-terminal domain of the protein kinase AtSOS2 bound to the calcium sensor AtSOS3

X-RAY DIFFRACTION

---

Starting Model(s)

Initial Refinement Model(s)
Type	Source	Accession Code	Details
experimental model	PDB	1V1G	Structure of SOS3

Crystallization

Crystalization Experiments
ID	Method	pH	Temperature	Details
1	VAPOR DIFFUSION, HANGING DROP	7.5	293	drops: 10mg/ml SOS3:C-SOS2, reservoir solution: 20%(w/v) PEG4000, 0.1M Tris-HCl pH 7.5, 0.2M Lithium Sulfate, 3%(v/v) Ethylene Glycol; 1M Guanidine HCl in a ratio of 1:1:0.5, VAPOR DIFFUSION, HANGING DROP, temperature 293K

Crystal Properties
Matthews coefficient	Solvent content
2.22	44.72

Crystal Data

Unit Cell
Length ( Å )	Angle ( ˚ )
a = 44.137	α = 90
b = 57.387	β = 90
c = 141.896	γ = 90

Symmetry
Space Group	P 21 21 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 315	The main optical elements are a liquid nitrogen cooled channel-cut silicon monochromator and a cylindrical grazing incidence mirror, the latter which is bent to approximate to a toroidal curvature.	2006-02-16	M	SINGLE WAVELENGTH

Radiation Source
ID #	Source	Type	Wavelength List	Synchrotron Site	Beamline
1	SYNCHROTRON	ESRF BEAMLINE ID29	0.979	ESRF	ID29

Data Collection

Overall
ID #	Resolution (High)	Resolution (Low)	Percent Possible (Observed)	R Merge I (Observed)	R Sym 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	70.9	99.3	0.06	0.06	9.7	4.4	25141	25141	2	2

Highest Resolution Shell
ID #	Resolution (High)	Resolution (Low)	Percent Possible (All)	Percent Possible (Observed)	R Merge I (Observed)	R-Sym I (Observed)	Mean I Over Sigma (Observed)	Redundancy	Number Unique Reflections (All)
1	2	2.05	92.7		0.35	0.35	2.6	3.5

Refinement

Statistics
Diffraction ID	Structure Solution Method	Cross Validation method	Starting model	Resolution (High)	Resolution (Low)	Cut-off Sigma (I)	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-Work (DCC)	R-Free (Depositor)	R-Free (DCC)	R-Free Selection Details	Mean Isotropic B
X-RAY DIFFRACTION	MOLECULAR REPLACEMENT	THROUGHOUT	Structure of SOS3	2.1	70.89	2	2	20664	20664	1066	99.69	0.2168	0.2168	0.21453	0.22	0.25932	0.23	RANDOM	30.969

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]
4.88			-2.42		-2.46

RMS Deviations
Key	Refinement Restraint Deviation
r_dihedral_angle_2_deg	34.489
r_dihedral_angle_4_deg	22.528
r_dihedral_angle_3_deg	18.574
r_dihedral_angle_1_deg	5.661
r_scangle_it	3.63
r_scbond_it	2.193
r_mcangle_it	1.422
r_angle_refined_deg	1.388
r_mcbond_it	0.843
r_nbtor_refined	0.307
r_nbd_refined	0.234
r_symmetry_hbond_refined	0.211
r_xyhbond_nbd_refined	0.173
r_symmetry_vdw_refined	0.152
r_metal_ion_refined	0.124
r_chiral_restr	0.096
r_bond_refined_d	0.013
r_gen_planes_refined	0.005

Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms	Number
Protein Atoms	2513
Nucleic Acid Atoms
Solvent Atoms	210
Heterogen Atoms	2

Software

Software
Software Name	Purpose
REFMAC	refinement
DNA	data collection
MOSFLM	data reduction
SCALA	data scaling
AMoRE	phasing