9GQV | pdb_00009gqv

Pseudomonas aeruginosa FabF C164A in complex with N-((1-((2-hydroxy-4-methylpentanamido)methyl)cyclobutyl)methyl)-1H-pyrazole-3-carboxamide

X-RAY DIFFRACTION

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Starting Model(s)

Initial Refinement Model(s)
Type	Source	Accession Code	Details
experimental model	Other		In-house determined apo model

Crystallization

Crystalization Experiments
ID	Method	pH	Temperature	Details
1	VAPOR DIFFUSION, SITTING DROP		298	0.24M ammonium formate and 35% PEG3350

Crystal Properties
Matthews coefficient	Solvent content
2.14	42.45

Crystal Data

Unit Cell
Length ( Å )	Angle ( ˚ )
a = 100.679	α = 90
b = 103.811	β = 90
c = 143.318	γ = 90

Symmetry
Space Group	C 2 2 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 EIGER2 X 9M		2023-09-15	M	SINGLE WAVELENGTH

Radiation Source
ID #	Source	Type	Wavelength List	Synchrotron Site	Beamline
1	SYNCHROTRON	ESRF BEAMLINE ID30B	0.8731	ESRF	ID30B

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	1.766	51.91	99.21	0.099	0.113	0.053	0.989	8.1	4.6		73113

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	1.77	1.8	93.9		1.276	1.471	0.713	0.28	0.7	4.3

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 (Depositor)	R-Work (DCC)	R-Free (Depositor)	R-Free (DCC)	Mean Isotropic B
X-RAY DIFFRACTION	MOLECULAR REPLACEMENT	FREE R-VALUE	1.766	51.905	73087	3737	99.151	0.184	0.1818	0.1839	0.2222	0.2205	33.684

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]
-0.689			1.325		-0.637

RMS Deviations
Key	Refinement Restraint Deviation
r_dihedral_angle_6_deg	16.772
r_dihedral_angle_3_deg	13.066
r_dihedral_angle_2_deg	9.27
r_dihedral_angle_1_deg	7.371
r_lrange_it	6.905
r_lrange_other	6.862
r_scangle_it	5.838
r_scangle_other	5.838
r_scbond_it	4.114
r_scbond_other	4.114
r_mcangle_it	3.385
r_mcangle_other	3.385
r_mcbond_it	2.708
r_mcbond_other	2.707
r_angle_refined_deg	1.976
r_dihedral_angle_other_2_deg	1.787
r_angle_other_deg	1.035
r_nbd_refined	0.179
r_nbtor_refined	0.147
r_symmetry_nbd_other	0.145
r_chiral_restr	0.114
r_nbd_other	0.114
r_xyhbond_nbd_refined	0.107
r_symmetry_xyhbond_nbd_refined	0.101
r_symmetry_nbtor_other	0.066
r_ncsr_local_group_1	0.056
r_symmetry_nbd_refined	0.055
r_bond_refined_d	0.011
r_gen_planes_refined	0.01
r_bond_other_d	0.005
r_gen_planes_other	0.004

Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms	Number
Protein Atoms	6032
Nucleic Acid Atoms
Solvent Atoms	345
Heterogen Atoms	124

Software

Software
Software Name	Purpose
REFMAC	refinement
xia2	data reduction
DIALS	data scaling
PHASER	phasing