4YK8

Crystal structure of the Atg101-Atg13 complex from fission yeast

X-RAY DIFFRACTION

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Crystallization

Crystalization Experiments
ID	Method	pH	Temperature	Details
1	VAPOR DIFFUSION, SITTING DROP	8	293	4M sodium chloride, 0.1M Tris-HCl pH 8.0, 0.2% D-fructose 1,6-diphosphate trisodium salt octahydrate, 0.2% glycerol phosphate disodium salt hydrate, 0.2% L-O-phosphoserine, 0.2% phytic acid sodium salt hydrate, 0.02 M HEPES sodium pH 6.8

Crystal Properties
Matthews coefficient	Solvent content
2.82	56.3

Crystal Data

Unit Cell
Length ( Å )	Angle ( ˚ )
a = 73.822	α = 90
b = 83.389	β = 106.22
c = 91.113	γ = 90

Symmetry
Space Group	C 1 2 1

Diffraction

Diffraction Experiment
ID #	Crystal ID	Scattering Type	Data Collection Temperature	Detector	Detector Type	Details	Collection Date	Monochromator	Protocol
1	1	x-ray	95	CCD	RAYONIX MX225HE		2013-11-21	M	SINGLE WAVELENGTH

Radiation Source
ID #	Source	Type	Wavelength List	Synchrotron Site	Beamline
1	SYNCHROTRON	SPRING-8 BEAMLINE BL41XU	1.0000, 1.0070	SPring-8	BL41XU

Data Collection

Overall
ID #	Resolution (High)	Resolution (Low)	Percent Possible (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	3	43.75	99.2	0.072	15.7	3.8	11052	11052		-3

Highest Resolution Shell
ID #	Resolution (High)	Resolution (Low)	Percent Possible (All)	Percent Possible (Observed)	Mean I Over Sigma (Observed)	Redundancy	Number Unique Reflections (All)
1	3	3.05	99.6		2.5	3.7

Refinement

Statistics
Diffraction ID	Structure Solution Method	Cross Validation method	Resolution (High)	Resolution (Low)	Number Reflections (Observed)	Number Reflections (R-Free)	Percent Reflections (Observed)	R-Factor (Observed)	R-Work	R-Free	R-Free Selection Details	Mean Isotropic B
X-RAY DIFFRACTION	SAD	THROUGHOUT	3	43.74	10666	562	99.2	0.267	0.267	0.288	RANDOM	92.3

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]
-11.79		32.45	0.25		11.54

RMS Deviations
Key	Refinement Restraint Deviation
c_dihedral_angle_d	24
c_mcangle_it	3.02
c_scangle_it	2.7
c_scbond_it	1.72
c_mcbond_it	1.65
c_angle_deg	1.5
c_improper_angle_d	0.92
c_bond_d	0.008
c_bond_d_na
c_bond_d_prot
c_angle_d
c_angle_d_na
c_angle_d_prot
c_angle_deg_na
c_angle_deg_prot
c_dihedral_angle_d_na
c_dihedral_angle_d_prot
c_improper_angle_d_na
c_improper_angle_d_prot

Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms	Number
Protein Atoms	2643
Nucleic Acid Atoms
Solvent Atoms
Heterogen Atoms

Software

Software
Software Name	Purpose
CNS	refinement
REFMAC	refinement
Coot	model building
PHASES	phasing
HKL-2000	data processing
HKL-2000	data reduction
HKL-2000	data scaling