6Z33

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

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
3.46	64.5

Crystal Data

Unit Cell
Length ( Å )	Angle ( ˚ )
a = 85.962	α = 90
b = 157.358	β = 90
c = 78.077	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 EIGER2 XE 16M		2020-03-01	M	SINGLE WAVELENGTH

Radiation Source
ID #	Source	Type	Wavelength List	Synchrotron Site	Beamline
1	SYNCHROTRON	DIAMOND BEAMLINE I03	0.97625	Diamond	I03

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	2.711	78.679	83	0.062	1	16.9	7.5		24453

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	2.711	2.858			0.555

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	6q5E	2.711	78.679	24453	1171	82.984	0.227	0.2258	0.2515	101.994

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]
-0.445			-0.945		1.39

RMS Deviations
Key	Refinement Restraint Deviation
r_dihedral_angle_2_deg	38.687
r_dihedral_angle_4_deg	17.275
r_dihedral_angle_3_deg	17.113
r_lrange_it	12.081
r_lrange_other	12.08
r_dihedral_angle_1_deg	9.639
r_scangle_it	9.498
r_scangle_other	9.497
r_mcangle_it	9.076
r_mcangle_other	9.075
r_scbond_it	7.134
r_scbond_other	7.122
r_mcbond_other	6.649
r_mcbond_it	6.648
r_angle_refined_deg	1.255
r_angle_other_deg	1.073
r_nbd_other	0.301
r_symmetry_nbd_refined	0.237
r_nbd_refined	0.208
r_symmetry_nbd_other	0.207
r_xyhbond_nbd_refined	0.168
r_nbtor_refined	0.166
r_symmetry_nbtor_other	0.074
r_chiral_restr	0.049
r_symmetry_xyhbond_nbd_other	0.044
r_gen_planes_refined	0.022
r_ext_dist_refined_d	0.02
r_gen_planes_other	0.014
r_bond_refined_d	0.009
r_bond_other_d	0.003

Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms	Number
Protein Atoms	5370
Nucleic Acid Atoms
Solvent Atoms
Heterogen Atoms	38

Software

Software
Software Name	Purpose
REFMAC	refinement
XDS	data reduction
STARANISO	data scaling
PHASER	phasing