8B43

Crystal structure of ferrioxamine transporter


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.49 Å
  • R-Value Free: 0.259 
  • R-Value Work: 0.217 
  • R-Value Observed: 0.219 

Starting Model: experimental
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wwPDB Validation   3D Report Full Report


Ligand Structure Quality Assessment 


This is version 1.2 of the entry. See complete history


Literature

Interactions of TonB-dependent transporter FoxA with siderophores and antibiotics that affect binding, uptake, and signal transduction.

Chan, D.C.K.Josts, I.Koteva, K.Wright, G.D.Tidow, H.Burrows, L.L.

(2023) Proc Natl Acad Sci U S A 120: e2221253120-e2221253120

  • DOI: https://doi.org/10.1073/pnas.2221253120
  • Primary Citation of Related Structures:  
    8B43

  • PubMed Abstract: 

    The outer membrane of gram-negative bacteria prevents many antibiotics from reaching intracellular targets. However, some antimicrobials can take advantage of iron import transporters to cross this barrier. We showed previously that the thiopeptide antibiotic thiocillin exploits the nocardamine xenosiderophore transporter, FoxA, of the opportunistic pathogen Pseudomonas aeruginosa for uptake. Here, we show that FoxA also transports the xenosiderophore bisucaberin and describe at 2.5 Å resolution the crystal structure of bisucaberin bound to FoxA. Bisucaberin is distinct from other siderophores because it forms a 3:2 rather than 1:1 siderophore-iron complex. Mutations in a single extracellular loop of FoxA differentially affected nocardamine, thiocillin, and bisucaberin binding, uptake, and signal transduction. These results show that in addition to modulating ligand binding, the extracellular loops of siderophore transporters are of fundamental importance for controlling ligand uptake and its regulatory consequences, which have implications for the development of siderophore-antibiotic conjugates to treat difficult infections.


  • Organizational Affiliation

    David Braley Center for Antibiotic Discovery, McMaster University, Hamilton, ON L8S 4K1, Canada.


Macromolecules
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 1
MoleculeChains Sequence LengthOrganismDetailsImage
Ferrichrome-iron receptor820Pseudomonas aeruginosaMutation(s): 0 
Gene Names: 
fhuACAZ10_13360CCBH4851_00003E4V10_32510E5Z62_12280E5Z63_14065ECC04_000265IPC111_29490IPC112_00225IPC113_05635IPC114_00330IPC115_06110IPC116_18480IPC117_19040IPC118_20600IPC119_16420IPC120_21950IPC121_12885IPC122_11180IPC123_16730IPC127_08885IPC128_09865IPC129_00020IPC1308_04865IPC1309_03980IPC130_05340IPC1316_31905IPC1318_19180IPC1319_31550IPC1322_32775IPC1323_26065IPC1324_33040IPC1325_29400IPC1326_32065IPC1327_32520IPC1328_29370IPC1330_28425IPC1331_24705IPC1334_10415IPC1336_30070IPC1337_10850IPC1339_09990IPC133_29845IPC1340_09045IPC1341_24180IPC1345_29990IPC1346_29735IPC1348_00035IPC1349_15780IPC135_30075IPC137_00035IPC144_29610IPC145_28630IPC146_29610IPC1474_04965IPC1476_32515IPC1477_33575IPC1478_33300IPC1479_32370IPC147_29490IPC1480_32130IPC1481_32815IPC1482_21280IPC1485_09320IPC1486_10855IPC1487_33190IPC1489_18290IPC148_26420IPC1491_08270IPC1492_29835IPC1495_19880IPC1496_33380IPC1499_32915IPC149_29645IPC1502_10500IPC1505_28910IPC1506_21665IPC1507_22645IPC1508_18730IPC1509_33270IPC150_29930IPC1510_33310IPC1511_32960IPC1514_01540IPC1515_22320IPC1516_17155IPC1519_22675IPC151_29990IPC1521_33400IPC1522_24390IPC1523_32260IPC1583_30165IPC1584_20440IPC1585_29835IPC1588_30170IPC1591_33265IPC1594_30075IPC1598_25380IPC1600_30275IPC1601_29690IPC1605_17140IPC1606_30605IPC161_15130IPC162_30720IPC163_19705IPC164_31415IPC165_30780IPC166_01575IPC167_30540IPC168_09805IPC169_30590IPC170_31460IPC171_30710IPC172_27970IPC173_29435IPC174_29630IPC175_29725IPC176_29315IPC177_02190IPC179_31230IPC180_31650IPC181_32015IPC182_29540IPC183_29205IPC184_29735IPC30_22565IPC31_25415IPC32_21555IPC56_24585IPC574_27490IPC575_26795IPC576_25760IPC577_27630IPC578_25795IPC579_25235IPC580_09580IPC582_23120IPC584_11300IPC586_25800IPC589_11355IPC603_33385IPC604_32235IPC605_33360IPC606_33430IPC608_27725IPC609_32540IPC610_23145IPC611_33385IPC612_21400IPC613_33705IPC614_33670IPC615_33055IPC616_32660IPC618_22390IPC61_22085IPC620_33170IPC624_33400IPC70_09875IPC72_30920IPC73_32315IPC74_32150IPC75_28580IPC77_23050IPC78_29675

Membrane Entity: Yes 
UniProt
Find proteins for A0A0C7CQY7 (Pseudomonas aeruginosa)
Explore A0A0C7CQY7 
Go to UniProtKB:  A0A0C7CQY7
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupA0A0C7CQY7
Sequence Annotations
Expand
  • Reference Sequence
Small Molecules
Ligands 4 Unique
IDChains Name / Formula / InChI Key2D Diagram3D Interactions
OX8 (Subject of Investigation/LOI)
Query on OX8

Download Ideal Coordinates CCD File 
J [auth A],
K [auth A],
L [auth A]
1,12-bis(oxidanyl)-1,6,12,17-tetrazacyclodocosane-2,5,13,16-tetrone
C18 H32 N4 O6
GTADQMQBQBOJIO-UHFFFAOYSA-N
BOG
Query on BOG

Download Ideal Coordinates CCD File 
E [auth A],
F [auth A],
G [auth A]
octyl beta-D-glucopyranoside
C14 H28 O6
HEGSGKPQLMEBJL-RKQHYHRCSA-N
SO4
Query on SO4

Download Ideal Coordinates CCD File 
B [auth A],
C [auth A],
D [auth A],
M [auth A]
SULFATE ION
O4 S
QAOWNCQODCNURD-UHFFFAOYSA-L
FE (Subject of Investigation/LOI)
Query on FE

Download Ideal Coordinates CCD File 
H [auth A],
I [auth A]
FE (III) ION
Fe
VTLYFUHAOXGGBS-UHFFFAOYSA-N
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.49 Å
  • R-Value Free: 0.259 
  • R-Value Work: 0.217 
  • R-Value Observed: 0.219 
  • Space Group: P 32 2 1
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 95.411α = 90
b = 95.411β = 90
c = 177.984γ = 120
Software Package:
Software NamePurpose
PHENIXrefinement
PDB_EXTRACTdata extraction
XDSdata reduction
Aimlessdata scaling
PHENIXphasing

Structure Validation

View Full Validation Report



Ligand Structure Quality Assessment 


Entry History & Funding Information

Deposition Data


Funding OrganizationLocationGrant Number
German Research Foundation (DFG)Germany--

Revision History  (Full details and data files)

  • Version 1.0: 2023-04-26
    Type: Initial release
  • Version 1.1: 2024-02-07
    Changes: Data collection, Refinement description
  • Version 1.2: 2024-11-13
    Changes: Structure summary