6YY5

Crystal structure of the ferric enterobactin receptor (PfeA) in complex with TCV_L5

X-RAY DIFFRACTION

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Starting Model(s)

Initial Refinement Model(s)
Type	Source	Accession Code	Details
experimental model	PDB	6Q5E

Crystallization

Crystalization Experiments
ID	Method	pH	Temperature	Details
1	VAPOR DIFFUSION		294	PEG 8000, ADA, Magnesium acetate

Crystal Properties
Matthews coefficient	Solvent content
3.32	62.9

Crystal Data

Unit Cell
Length ( Å )	Angle ( ˚ )
a = 85.795	α = 90
b = 157.049	β = 90
c = 77.503	γ = 90

Symmetry
Space Group	P 21 21 2

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-F		2019-04-15	M	SINGLE WAVELENGTH

Radiation Source
ID #	Source	Type	Wavelength List	Synchrotron Site	Beamline
1	SYNCHROTRON	DIAMOND BEAMLINE I04-1	0.91587	Diamond	I04-1

Data Collection

Overall
ID #	Resolution (High)	Resolution (Low)	Percent Possible (Observed)	R Merge I (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	2.717	75.293	99.8	0.071	0.999	12.5	7.1		28920

Highest Resolution Shell
ID #	Resolution (High)	Resolution (Low)	Percent Possible (All)	Percent Possible (Observed)	R Merge I (Observed)	CC (Half)	Mean I Over Sigma (Observed)	Redundancy	Number Unique Reflections (All)
1	2.717	2.76	93.5		1.752	0.443

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	NONE	6q5e	2.717	75.293	28865	1465	99.634	0.216	0.2144	0.258	95.139

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]
1.126			-0.961		-0.165

RMS Deviations
Key	Refinement Restraint Deviation
r_dihedral_angle_2_deg	37.36
r_dihedral_angle_4_deg	19.473
r_dihedral_angle_3_deg	17.757
r_lrange_it	9.82
r_lrange_other	9.82
r_dihedral_angle_1_deg	9.527
r_scangle_it	8.623
r_scangle_other	8.622
r_mcangle_it	7.394
r_mcangle_other	7.393
r_scbond_it	6.188
r_scbond_other	6.175
r_mcbond_other	5.485
r_mcbond_it	5.484
r_angle_refined_deg	1.349
r_angle_other_deg	1.174
r_symmetry_nbd_refined	0.398
r_nbd_other	0.34
r_nbd_refined	0.208
r_symmetry_nbd_other	0.208
r_nbtor_refined	0.167
r_xyhbond_nbd_refined	0.16
r_metal_ion_refined	0.079
r_symmetry_nbtor_other	0.075
r_symmetry_xyhbond_nbd_other	0.07
r_ext_dist_refined_d	0.055
r_chiral_restr	0.052
r_gen_planes_refined	0.017
r_bond_refined_d	0.007
r_gen_planes_other	0.007
r_bond_other_d	0.001

Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms	Number
Protein Atoms	5370
Nucleic Acid Atoms
Solvent Atoms	7
Heterogen Atoms	50

Software

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