6SKW

Crystal structure of the Legionella pneumophila type II secretion system substrate NttE

X-RAY DIFFRACTION

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Crystallization

Crystalization Experiments
ID	Method	pH	Temperature	Details
1	VAPOR DIFFUSION, SITTING DROP	6.5	293	40% (v/v) ethylene glycol, 20% (w/v) polyethylene glycol 8000, 50 mM imidazole, 50 mM 2-(N-morpholine)ethanesulfonic acid pH 6.5, 300 mM magnesium chloride, 300 mM calcium chloride

Crystal Properties
Matthews coefficient	Solvent content
3.32	62.91

Crystal Data

Unit Cell
Length ( Å )	Angle ( ˚ )
a = 120.87	α = 90
b = 120.87	β = 90
c = 104.39	γ = 120

Symmetry
Space Group	P 32 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	100	PIXEL	DECTRIS PILATUS3 S 6M		2014-05-23	M	SINGLE WAVELENGTH

Radiation Source
ID #	Source	Type	Wavelength List	Synchrotron Site	Beamline
1	SYNCHROTRON	DIAMOND BEAMLINE I04	0.9793	Diamond	I04

Data Collection

Overall
ID #	Resolution (High)	Resolution (Low)	Percent Possible (Observed)	R Merge I (Observed)	Rrim I (All)	Rpim I (All)	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	104.68	99.9	0.071	0.09	0.024	25.1	13.9		45011			36.5

Highest Resolution Shell
ID #	Resolution (High)	Resolution (Low)	Percent Possible (All)	Percent Possible (Observed)	R Merge I (Observed)	Rrim I (All)	Rpim I (All)	Mean I Over Sigma (Observed)	Redundancy	Number Unique Reflections (All)
1	2.2	2.26	99.5		0.423	0.46	0.121	7.2

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 (All)	R-Work	R-Free	Mean Isotropic B
X-RAY DIFFRACTION	SAD	FREE R-VALUE	2.2	104.676	45010	2273	99.834	0.188	0.1867	0.2105	38.96

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]
1.145	0.573		1.145		-3.716

RMS Deviations
Key	Refinement Restraint Deviation
r_dihedral_angle_2_deg	31.619
r_dihedral_angle_4_deg	16.094
r_dihedral_angle_3_deg	14.893
r_dihedral_angle_1_deg	7.583
r_lrange_it	5.926
r_lrange_other	5.853
r_scangle_it	4.098
r_scangle_other	4.097
r_mcangle_it	2.947
r_mcangle_other	2.947
r_scbond_it	2.535
r_scbond_other	2.535
r_angle_other_deg	2.296
r_mcbond_it	1.8
r_mcbond_other	1.798
r_angle_refined_deg	1.698
r_nbd_other	0.243
r_symmetry_nbd_refined	0.215
r_symmetry_nbd_other	0.214
r_nbd_refined	0.208
r_symmetry_xyhbond_nbd_refined	0.185
r_nbtor_refined	0.177
r_xyhbond_nbd_refined	0.166
r_chiral_restr	0.084
r_symmetry_nbtor_other	0.074
r_bond_other_d	0.034
r_gen_planes_other	0.013
r_bond_refined_d	0.011
r_gen_planes_refined	0.009

Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms	Number
Protein Atoms	4330
Nucleic Acid Atoms
Solvent Atoms	345
Heterogen Atoms	44

Software

Software
Software Name	Purpose
REFMAC	refinement
XDS	data reduction
SCALA	data scaling
SHARP	phasing