7ATW

Structure of P. aeruginosa PBP3 in complex with a benzoxaborole (Compound 3)

X-RAY DIFFRACTION

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Crystallization

Crystalization Experiments
ID	Method	pH	Temperature	Details
1	VAPOR DIFFUSION, SITTING DROP	6	293	25%(w/v) polyethylene glycol 3350, 0.1M Bis-Tris propane, 1%(w/v) protamine sulphate, pH 6

Crystal Properties
Matthews coefficient	Solvent content
2.17	43.41

Crystal Data

Unit Cell
Length ( Å )	Angle ( ˚ )
a = 69.301	α = 90
b = 82.24	β = 90
c = 88.521	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	PIXEL	DECTRIS PILATUS 6M	Mirrors	2018-07-13	M	SINGLE WAVELENGTH

Radiation Source
ID #	Source	Type	Wavelength List	Synchrotron Site	Beamline
1	SYNCHROTRON	DIAMOND BEAMLINE I03	0.97934	Diamond	I03

Data Collection

Overall
ID #	Resolution (High)	Resolution (Low)	Percent Possible (Observed)	R Merge I (Observed)	Rrim I (All)	Rpim I (All)	CC (Half)	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	1.44	60.25	95.7	0.045	0.048	0.018	0.999	18	7.1		67984

Highest Resolution Shell
ID #	Resolution (High)	Resolution (Low)	Percent Possible (All)	Percent Possible (Observed)	R Merge I (Observed)	Rrim I (All)	Rpim I (All)	CC (Half)	Mean I Over Sigma (Observed)	Redundancy	Number Unique Reflections (All)
1	1.44	1.59	67.6		0.869	0.952	0.381	0.702		6

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 (All)	R-Work	R-Free	Mean Isotropic B
X-RAY DIFFRACTION	MOLECULAR REPLACEMENT	THROUGHOUT	6HZR	1.44	60.25	67984	3362	73.53	0.144	0.1407	0.201	34.327

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]
-0.944			-1.216		2.16

RMS Deviations
Key	Refinement Restraint Deviation
r_dihedral_angle_2_deg	26.48
r_dihedral_angle_4_deg	20.09
r_dihedral_angle_3_deg	14.52
r_scangle_it	8.705
r_scangle_other	8.704
r_lrange_it	8.471
r_lrange_other	8.447
r_scbond_it	7.467
r_scbond_other	7.467
r_dihedral_angle_1_deg	6.667
r_rigid_bond_restr	6.535
r_mcangle_it	5.877
r_mcangle_other	5.876
r_mcbond_it	4.973
r_mcbond_other	4.956
r_angle_refined_deg	1.805
r_angle_other_deg	1.448
r_nbd_refined	0.216
r_nbd_other	0.216
r_symmetry_nbd_other	0.186
r_nbtor_refined	0.164
r_symmetry_nbd_refined	0.148
r_xyhbond_nbd_refined	0.123
r_symmetry_xyhbond_nbd_refined	0.111
r_chiral_restr	0.104
r_symmetry_nbtor_other	0.082
r_bond_refined_d	0.014
r_gen_planes_refined	0.009
r_bond_other_d	0.002
r_gen_planes_other	0.001

Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms	Number
Protein Atoms	3767
Nucleic Acid Atoms
Solvent Atoms	202
Heterogen Atoms	30

Software

Software
Software Name	Purpose
XDS	data reduction
Aimless	data scaling
PHASER	phasing
REFMAC	refinement
PHENIX	refinement
STARANISO	data processing
PDB_EXTRACT	data extraction