3DH8

Structure of Pseudomonas Quinolone Signal Response Protein PqsE

X-RAY DIFFRACTION

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Starting Model(s)

Initial Refinement Model(s)
Type	Source	Accession Code	Details
experimental model	PDB	2Q0I

Crystallization

Crystalization Experiments
ID	Method	pH	Temperature	Details
1	VAPOR DIFFUSION, HANGING DROP	7.6	292	100mM HEPES, 200mM MgCl2, 30% PEG 400, 5mM bis-pNPP, pH 7.6, VAPOR DIFFUSION, HANGING DROP, temperature 292K

Crystal Properties
Matthews coefficient	Solvent content
2.28	46.12

Crystal Data

Unit Cell
Length ( Å )	Angle ( ˚ )
a = 60.98	α = 90
b = 60.98	β = 90
c = 146.82	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	CCD	MARMOSAIC 225 mm CCD		2008-05-02	M	SINGLE WAVELENGTH

Radiation Source
ID #	Source	Type	Wavelength List	Synchrotron Site	Beamline
1	SYNCHROTRON	SLS BEAMLINE X10SA	0.97881	SLS	X10SA

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	20	99.8	0.053	26	11	30154	30110		4.3	35

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	1.8	1.9	99.9		0.377	4.3	6.8	4432

Refinement

Statistics
Diffraction ID	Structure Solution Method	Cross Validation method	Starting model	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	Rigid body refinement of native structure 2q0i in REFMAC5	THROUGHOUT	2Q0I	1.8	19.96	28614	1495	99.95	0.15809	0.15608	0.19627	RANDOM	25.648

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]

RMS Deviations
Key	Refinement Restraint Deviation
r_dihedral_angle_2_deg	34.109
r_dihedral_angle_4_deg	18.973
r_dihedral_angle_3_deg	14.552
r_dihedral_angle_1_deg	6.306
r_scangle_it	5.39
r_scbond_it	3.846
r_mcangle_it	2.275
r_angle_refined_deg	2.207
r_mcbond_it	1.931
r_angle_other_deg	1.139
r_mcbond_other	0.498
r_symmetry_vdw_other	0.389
r_symmetry_hbond_refined	0.363
r_symmetry_vdw_refined	0.273
r_nbd_refined	0.232
r_nbd_other	0.223
r_xyhbond_nbd_refined	0.189
r_nbtor_refined	0.187
r_chiral_restr	0.155
r_nbtor_other	0.093
r_bond_refined_d	0.027
r_gen_planes_refined	0.012
r_metal_ion_refined	0.012
r_bond_other_d	0.002
r_gen_planes_other	0.001

Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms	Number
Protein Atoms	2378
Nucleic Acid Atoms
Solvent Atoms	224
Heterogen Atoms	25

Software

Software
Software Name	Purpose
REFMAC	refinement
ADSC	data collection
XDS	data reduction
XSCALE	data scaling
REFMAC	phasing