7BGO

The crystal structure of gene product PA4063 from Pseudomonas aeruginosa in complex with Zn (space group P65)

X-RAY DIFFRACTION

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Crystallization

Crystalization Experiments
ID	Method	pH	Temperature	Details
1	VAPOR DIFFUSION, HANGING DROP		294	AS 3M, MPD 1%

Crystal Properties
Matthews coefficient	Solvent content
3.77	67.33

Crystal Data

Unit Cell
Length ( Å )	Angle ( ˚ )
a = 122.005	α = 90
b = 122.005	β = 90
c = 102.263	γ = 120

Symmetry
Space Group	P 65

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 6M		2019-12-12	M	SINGLE WAVELENGTH

Radiation Source
ID #	Source	Type	Wavelength List	Synchrotron Site	Beamline
1	SYNCHROTRON	ELETTRA BEAMLINE 11.2C	1.27110	ELETTRA	11.2C

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	3.3	46.94	96.1	0.135	0.143	0.047	0.999	18.6	17.7		12599

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	3.3	3.57			2.461	2.608	0.86	0.677		17.9

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	FREE R-VALUE	7ALY	3.301	46.94	12561	552	96.039	0.179	0.1773	0.2114	133.913

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]
2.683	1.342		2.683		-8.705

RMS Deviations
Key	Refinement Restraint Deviation
r_dihedral_angle_2_deg	30.671
r_lrange_other	23.304
r_lrange_it	23.295
r_scangle_it	20.521
r_scangle_other	20.521
r_dihedral_angle_3_deg	19.897
r_mcangle_it	18.69
r_mcangle_other	18.687
r_dihedral_angle_4_deg	17.324
r_scbond_it	14.476
r_scbond_other	14.444
r_mcbond_it	13.817
r_mcbond_other	13.794
r_dihedral_angle_1_deg	7.803
r_angle_refined_deg	1.785
r_angle_other_deg	1.182
r_symmetry_nbd_refined	0.224
r_symmetry_xyhbond_nbd_refined	0.222
r_nbd_refined	0.214
r_nbd_other	0.211
r_symmetry_nbd_other	0.186
r_nbtor_refined	0.16
r_ncsr_local_group_2	0.118
r_xyhbond_nbd_refined	0.113
r_ncsr_local_group_1	0.113
r_ncsr_local_group_3	0.11
r_symmetry_nbtor_other	0.081
r_chiral_restr	0.064
r_bond_refined_d	0.01
r_gen_planes_refined	0.006
r_bond_other_d	0.001
r_gen_planes_other	0.001

Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms	Number
Protein Atoms	3192
Nucleic Acid Atoms
Solvent Atoms	6
Heterogen Atoms	6

Software

Software
Software Name	Purpose
REFMAC	refinement
REFMAC	refinement
Aimless	data processing
XDS	data reduction
XSCALE	data scaling
AutoSol	phasing