9I7K | pdb_00009i7k

Pseudomonas aeruginosa FabF C164A in complex with N-(3-(2-(1H-pyrrol-1-yl)propanamido)-2-hydroxy-2-methylpropyl)-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 structure

Crystallization

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

Crystal Properties
Matthews coefficient	Solvent content
2.13	42.25

Crystal Data

Unit Cell
Length ( Å )	Angle ( ˚ )
a = 100.744	α = 90
b = 104.195	β = 90
c = 142.593	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 EIGER X 9M		2023-09-15	M	SINGLE WAVELENGTH

Radiation Source
ID #	Source	Type	Wavelength List	Synchrotron Site	Beamline
1	SYNCHROTRON	ESRF BEAMLINE ID30B	0.873129	ESRF	ID30B

Data Collection

Overall
ID #	Resolution (High)	Resolution (Low)	Percent Possible (Observed)	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	1.827	72.426	100	0.99	5.8	6.4		66594

Highest Resolution Shell
ID #	Resolution (High)	Resolution (Low)	Percent Possible (All)	Percent Possible (Observed)	CC (Half)	Mean I Over Sigma (Observed)	Redundancy	Number Unique Reflections (All)
1	1.827	1.858			0.33	0.8

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	1.827	72.426	66216	3267	99.394	0.175	0.1731	0.1764	0.2172	0.2211	24.701

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]
-1.666			0.327		1.339

RMS Deviations
Key	Refinement Restraint Deviation
r_dihedral_angle_6_deg	16.938
r_dihedral_angle_3_deg	12.853
r_dihedral_angle_2_deg	12.041
r_dihedral_angle_other_2_deg	9.805
r_dihedral_angle_1_deg	7.268
r_lrange_it	6.758
r_lrange_other	6.758
r_scangle_it	5.969
r_scangle_other	5.969
r_scbond_it	4.023
r_scbond_other	4.022
r_mcangle_it	2.751
r_mcangle_other	2.751
r_angle_refined_deg	2.171
r_mcbond_it	2.025
r_mcbond_other	2.025
r_angle_other_deg	1.041
r_nbd_refined	0.187
r_nbtor_refined	0.154
r_symmetry_nbd_other	0.139
r_chiral_restr	0.123
r_xyhbond_nbd_refined	0.116
r_symmetry_nbd_refined	0.093
r_symmetry_xyhbond_nbd_refined	0.089
r_nbd_other	0.088
r_symmetry_nbtor_other	0.069
r_ncsr_local_group_1	0.068
r_bond_refined_d	0.013
r_gen_planes_refined	0.012
r_bond_other_d	0.005
r_gen_planes_other	0.005
r_symmetry_xyhbond_nbd_other	0.001

Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms	Number
Protein Atoms	6043
Nucleic Acid Atoms
Solvent Atoms	221
Heterogen Atoms	117

Software

Software
Software Name	Purpose
REFMAC	refinement
autoPROC	data reduction
Aimless	data scaling
PHASER	phasing